Carl Boettiger
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Carl Boettigerbiology Degrees
Biology
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Ecology
#639
World Rank
#699
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Biology
Carl Boettiger's Degrees
- PhD Ecology University of California, Santa Cruz
- Masters Environmental Studies University of California, Santa Cruz
- Bachelors Biology University of California, Santa Cruz
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(Suggest an Edit or Addition)Carl Boettiger's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- An introduction to Docker for reproducible research (2014) (772)
- MODELING STABILIZING SELECTION: EXPANDING THE ORNSTEIN–UHLENBECK MODEL OF ADAPTIVE EVOLUTION (2012) (521)
- IS YOUR PHYLOGENY INFORMATIVE? MEASURING THE POWER OF COMPARATIVE METHODS (2011) (220)
- rfishbase: exploring, manipulating and visualizing FishBase data from R. (2012) (197)
- Quantifying limits to detection of early warning for critical transitions (2012) (158)
- Early warning signals: the charted and uncharted territories (2013) (144)
- An introduction to Docker for reproducible research, with examples from the R environment (2014) (118)
- Tipping points: From patterns to predictions (2013) (103)
- Early warning signals and the prosecutor's fallacy (2012) (98)
- Taxonomic Information from Around the Web (2015) (83)
- Packaging Data Analytical Work Reproducibly Using R (and Friends) (2018) (83)
- Making ecological models adequate. (2018) (82)
- R Python, and Ruby clients for GBIF species occurrence data (2017) (76)
- Skills and Knowledge for Data-Intensive Environmental Research (2017) (58)
- Building Software, Building Community: Lessons from the rOpenSci Project (2014) (49)
- An Introduction to Rocker: Docker Containers for R (2017) (45)
- Optimal management of a stochastically varying population when policy adjustment is costly. (2015) (44)
- From noise to knowledge: how randomness generates novel phenomena and reveals information. (2018) (43)
- No early warning signals for stochastic transitions: insights from large deviation theory (2013) (37)
- Is your phylogeny informative (2012) (35)
- Rebuilding global fisheries under uncertainty (2019) (33)
- Avoiding tipping points in fisheries management through Gaussian process dynamic programming (2014) (32)
- Enforcing public data archiving policies in academic publishing: A study of ecology journals (2018) (32)
- Software vs. data in the context of citation (2016) (30)
- After the games are over: life‐history trade‐offs drive dispersal attenuation following range expansion (2016) (25)
- The Shape, Multiplicity, and Evolution of Superclusters in ΛCDM Cosmology (2006) (24)
- Adaptive management of ecological systems under partial observability (2018) (19)
- Treebase: an R package for discovery, access and manipulation of online phylogenies (2012) (17)
- ASCARIS LUMBRICOIDES FOUND IN THE CAVITY OF THE HUMAN HEART (1929) (15)
- Revealing biases in the sampling of ecological interaction networks (2017) (12)
- Algorithmic conservation in a changing climate (2021) (12)
- Client for Various 'CrossRef' 'APIs' (2016) (11)
- A Community of Practice Around Peer Review for Long-Term Research Software Sustainability (2019) (10)
- PNEUMONIA AND SOME OF ITS COMPLICATIONS AT CAMP BOWIE (1919) (9)
- taxadb: A high‐performance local taxonomic database interface (2020) (9)
- Fluctuation domains in adaptive evolution. (2010) (8)
- How to Read a Research Compendium (2018) (8)
- Interface to the Search 'API' for 'PLoS' Journals (2015) (7)
- Resolving the Measurement Uncertainty Paradox in Ecological Management (2018) (6)
- The principles of tomorrow's university (2018) (6)
- The forecast trap. (2022) (6)
- Promoting equity in the use of algorithms for high-seas conservation (2021) (6)
- Client for Various 'CrossRef' 'APIs' [R package rcrossref version 1.1.0] (2020) (6)
- Grazer behavior can regulate large-scale patterning of community states (2019) (6)
- Deep reinforcement learning for conservation decisions (2021) (5)
- PRIMARY SUPPURATION OF LIVER DUE TO FRIEDLAENDER'S BACILLUS (1940) (5)
- A Shiny r app to solve the problem of when to stop managing or surveying species under imperfect detection (2020) (5)
- Social-ecological feedbacks drive tipping points in farming system diversification (2022) (4)
- Bifurcation or state tipping: assessing transition type in a model trophic cascade (2020) (4)
- Managing Larger Data on a GitHub Repository (2018) (4)
- R Interface to 'FishBase' (2015) (4)
- Generating CodeMeta Metadata for R Packages (2017) (4)
- Teaching machines to anticipate catastrophes (2021) (4)
- Interface to PLoS Journals search API (2014) (3)
- A Community Convention for Ecological Forecasting: Output Files and Metadata (2021) (3)
- Case Study 3: A Reproducible R Notebook Using Docker (2019) (3)
- Ecological Metadata as Linked Data (2019) (3)
- Demographic Noise (2008) (2)
- Semantic Citations For The Notebook And Knitr (2013) (2)
- What I look for in 'Software Papers' (2013) (2)
- RNeXML: a package for reading and writing richly annotated phylogenetic, character and trait data in r (2015) (2)
- Citations for 'Knitr' Markdown Files (2015) (2)
- Implementing the new approach (2010) (2)
- Limits to ecological forecasting: Estimating uncertainty for critical transitions with deep learning (2022) (2)
- Ecological management of stochastic systems with long transients (2020) (2)
- Comparing numerical methods (2012) (1)
- Priorities for synthesis research in ecology and environmental science (2023) (1)
- Power and accountability in reinforcement learning applications to environmental policy (2022) (1)
- Active adaptive management solutions: Belief SDP (2012) (1)
- Welcome to my Lab Notebook - Reloaded (2012) (1)
- Open Science Summit (2010) (1)
- Article Formats for R Markdown (2016) (1)
- an R interface to figshare.com (2014) (1)
- Reviewing Software Revisited (2013) (1)
- ropensci/arkdb: arkdb: Archive and Unarchive Databases Using Flat Files (2018) (1)
- Promoting equity in scientific recommendations for high seas governance (2021) (1)
- rocker/geospatial: a flexible runtime environment for geoscientific data analysis (2018) (1)
- Citing Lab Notebook Entries (2012) (1)
- R Interface to the DataONE REST API [R package dataone version 2.2.1] (2020) (1)
- Citing R packages (2012) (1)
- Stochastic limits to evolutionary branching (2010) (1)
- The NEON Ecological Forecasting Challenge (2023) (1)
- Basic regression in Gaussian processes (2012) (1)
- Plos Data Sharing Policy Reflections (2014) (1)
- TreeBASE in R: a first tutorial (2011) (0)
- Comparative methods paper status/to-do (2011) (0)
- Labrids & Parrotfish, method1 (2011) (0)
- Migrating Oww Posts To Jekyll (2012) (0)
- Figure For Summarizing Simulations (2013) (0)
- mcmc and bootstrapped likelihood runs on parrotfish tree (2011) (0)
- Different ways of visualizing distribution overlap (2012) (0)
- The Case for Better Data Citation Practices (2011) (0)
- Likelihood expressions for branching processes (2011) (0)
- Policy functions and value functions under multiple uncertainty (2012) (0)
- Warning Signals 2 (2010) (0)
- Data to Knowledge Day II and other notes (2012) (0)
- manuscript reviews on github (2013) (0)
- Sdp Reed Controls Comparisons (2015) (0)
- Warning signals - noise response (2011) (0)
- Gamma Waiting times on individual level (2010) (0)
- Segue: Easy cloud hpc in R, now with custom packages (2011) (0)
- Thursday Meetings: Duncan; Alan (2011) (0)
- Monday: ESA, appendix, etc (2011) (0)
- Further Examples Managing Tipping Points With Gp (2013) (0)
- Evolution Day 4 / #ievobio Day 1 (2011) (0)
- Coexistence Of The Early Dimorphism (2010) (0)
- Prosecutor's fallacy notes (2012) (0)
- Evolutionary Regime Shift examples (2010) (0)
- Thursday: Post-predictive verification exploration; writing and figures (2010) (0)
- My Prosecutor's Fallacy paper and other recent warning signals literature (2012) (0)
- General matrix form and correcting equations (2010) (0)
- Multiple Uncertainty Corrections (2012) (0)
- Phylogenetics Workshop Day 5 (2010) (0)
- Peter's talk (2011) (0)
- Access for Dryad Web Services [R package rdryad version 1.0.0] (2020) (0)
- Isees Day 2 (2013) (0)
- pdg-control Conference Call (2011) (0)
- Multiple Uncertainty Notes (2014) (0)
- rfishbase Tutorial - updated & extended (2011) (0)
- Tuesday: Visit to Berkeley (2011) (0)
- Some reproducible research practices in journals (2011) (0)
- Parallel hpc on clusters in R, MPI (2011) (0)
- Resilience seminar course plan (2012) (0)
- Tweets from an Ecology Field class (2010) (0)
- rOpenSci- Open Tools to Facilitate Data Driven Science in Ecology and Evolution (2013) (0)
- Back to Writing (2010) (0)
- more Phylogenetic signal metrics & Brownie comparison (2011) (0)
- Beetles workshop Day 2 (2010) (0)
- Likelihood ratio ToDo (2010) (0)
- Friday: Evolution reading, writing (2010) (0)
- Analytic Marginalizing For Posteriors (2013) (0)
- Steve Ellner's seminar (2011) (0)
- Solution to the strange behavior in ouch (2010) (0)
- Evolution Conference Day 1 (2011) (0)
- Graham & Peter Meeting (2010) (0)
- Leveraging private lands to meet 2030 biodiversity targets in the United States (2023) (0)
- Draft Wssspe Thoughts (2014) (0)
- ews-review: Published version (2015) (0)
- Measurement uncertainty matters: ecological management using POMDPs (2016) (0)
- Visit To Whoi (2013) (0)
- Too Much Fun With Docker (2014) (0)
- Saturday - back to Warning Signals MS (2011) (0)
- Monday - wrightscape meetings, PDG meeting (2011) (0)
- Tues: ESA presentation (2011) (0)
- wrightscape and sensitivity to initial conditions (2011) (0)
- Brian O'Meara discusses new algorithms approaches on Phylo (2011) (0)
- Bodega evolution Workshop: Continuous Characters R session planning (2011) (0)
- Tuesday: pmc package, latex to word attempts (2012) (0)
- Thursday, Fisheries course (2011) (0)
- Friday: more labrid & parrotfish wrightscape examples (2011) (0)
- Data Mangement on UC3 Merritt Repository (2011) (0)
- Warning signals vs model choice (2011) (0)
- Colored noise: some classic results in ecology (2011) (0)
- Sunday: Appendix edits (2011) (0)
- Organizing analyses, data, codes (2010) (0)
- Tuesday: Reading and thoughts (2011) (0)
- Elegant & fast data manipulation with data.table (2012) (0)
- Mapping out SICB Presentation: Is your phylogeny informative? (2010) (0)
- Reading Notes, presentation prep treebase error handling (2011) (0)
- evolution manuscript revisions (2011) (0)
- Gp Nimble Setup (2015) (0)
- Wednesday - Berkeley visits (2011) (0)
- Forage Fish course plan (2012) (0)
- Monday -- Edits and organization (2011) (0)
- pdg-control, Training Problem 2 update to group (2012) (0)
- Warning Signals, Monday (2011) (0)
- Challenges with Collaboration in Open Science (2011) (0)
- Warning Signals writing, organization, appendices (2011) (0)
- Further examples for appendices (2012) (0)
- pdg-control pdg-control, Tuesday (2011) (0)
- A Clever Derivation On Realized Escape Times (2013) (0)
- The Lab Notebook Goes Open (2010) (0)
- Regime shifts in ecology and evolution (2012) (0)
- Model identifiability in phylogenetic inference GTR+I+G (2011) (0)
- Robust control & uncertainty - reading notes (2012) (0)
- Wednesday: ESA presentation, manuscript/appendix edits (2011) (0)
- Roi and Sam Comparative Phylogenetics R Workshop (2010) (0)
- Ews Review Paper Chat (2013) (0)
- Rnexml Metadata Queries (2013) (0)
- Thursday finishing up appendices( (2011) (0)
- Nonparametric Bayes Notes (2012) (0)
- Do we need a culture of Data Science in Academia (2013) (0)
- Sensitivity Of Gp Comparisons In Further Examples (2013) (0)
- Thursday: submitting warning signals manuscript (2011) (0)
- Steps To A More Portable Workflow (2014) (0)
- Showcasing the latest phylogenetic methods: AUTEUR (2011) (0)
- server file management from bowser: ajaxplorer, mollify (2011) (0)
- Server Security Basics (2014) (0)
- Comparative evolution: Is the data informative? (2010) (0)
- Parrotfish in wrightscape (2011) (0)
- My experiment with open science: Why the benefits of sharing go beyond source code (2010) (0)
- Discovery, Access and Manipulation of 'TreeBASE' Phylogenies (2015) (0)
- Release of constraint in labrids (2011) (0)
- Crashing stocks and optimal harvesting effort on Allee effects (2011) (0)
- Notes of the Week (1921) (0)
- knitr, github, and a new phase for the lab notebook (2012) (0)
- Esa 2013 Notes For Week (2013) (0)
- Evolution Day 3 (2011) (0)
- Evolution and iEvobio conference notes (2012) (0)
- We Need More Object Oriented Design In Comparative Methods (2013) (0)
- Ensemble Behavior from Individual Dynamics in Multispecies Forest Populations (2013) (0)
- Mathematical Elements of Attack Risk Analysis for Mountain Pine tribolium (2011) (0)
- Mendeley API in R (2011) (0)
- Prosecutor Fallacy As Large Deviations (2013) (0)
- Tutorial On Likelihood And Roc Methods For Early Warning Signals (2013) (0)
- Tues: Sources of stochastic variation in optimal control (2011) (0)
- Citations in markdown using knitr (2012) (0)
- Wainwright Retreat to Hastings Reserve (2011) (0)
- Finishing Comparison Parametric And Nonparametric (2013) (0)
- Notes For Van Noorden Chat (2013) (0)
- Adaptive Dynamics Updates (2010) (0)
- Treebase Package On Cran (2011) (0)
- OU model in Nimble (2014) (0)
- Monday, appendices continue... (2011) (0)
- Multitype OU Processes with varying alpha and sigma (2010) (0)
- Saturday: git with latexdiff, TreeBASE and PMC package updates, bounds on lambda (2011) (0)
- Steve Pacala - Storer lecture (2011) (0)
- Optimal policy with assymetric costs to changing harvest quotas (2012) (0)
- ESA 2011 Abstract: Limits to Detection of Early Warning Signals (2011) (0)
- Near‐term forecasts of NEON lakes reveal gradients of environmental predictability across the US (2023) (0)
- Monday: scaling wrightscape examples (2011) (0)
- Scientific Computing Notes (2014) (0)
- McElreath: A Bayesian approach to hierarchical modeling, using R to build our own estimator from scratch (2011) (0)
- Warning signals & hpc (2011) (0)
- the week so far (2012) (0)
- Semantic Lab Notebook (2012) (0)
- Pdg Controlfest Notes (2014) (0)
- Automated feeds in notebook entries (2012) (0)
- Bayesian Gp Regression By Metropolis Hastings (2013) (0)
- Nimble On Dai Model (2015) (0)
- Docker And User Permissions Crazyness (2014) (0)
- socialR: Reproducible Research & Notebook integration with R (2010) (0)
- Tuesday: Parrotfish results, MCMCMC testing, APIs (2011) (0)
- Using knitr and RWordPress to publish results directly from R (2012) (0)
- Warning Signals on Real data continued (2011) (0)
- Dockerizing Fishbase Api (2015) (0)
- Gp Nimble V2 (2015) (0)
- Policy Costs Work (2012) (0)
- early results in nonparametric-bayes approaches to optimal policy (2012) (0)
- Monday: openfisheries & ggplot (2011) (0)
- Algorithms Group: Literate programming (2011) (0)
- Further exploration of RAM Legacy Stock Assessment data (2015) (0)
- A general model of continuous character evolution (2011) (0)
- Results Comparing Gp To Parametric (2012) (0)
- Likelihood ratio update (2010) (0)
- Friday, wordpress backups, pmc edits (2011) (0)
- Matt Potts: Conserving Diversity in Tropical Landscapes (2011) (0)
- Shape as well as size influence power of phylogeny (2011) (0)
- Cran And Package Dependencies (2014) (0)
- Tuesday: rropensci, Rmpi, manuscripts, ... (2011) (0)
- The Ergodicity Question- Time averaging vs Ensemble averaging (2010) (0)
- TreePar: changing rates of evolution (2011) (0)
- pdg-control pdg-control: Wednesday (2011) (0)
- Adaptive Dynamics: Branching Phenomena and the Canonical Equation (2007) (0)
- Evolution Day 2 (2011) (0)
- Lsn Model Comparisons (2015) (0)
- Friday, more runs (2011) (0)
- Warning Signals by model choice (2010) (0)
- Coreos Cluster Gotchas (2014) (0)
- Notes On Leveraging The Ecological Markup Language (2013) (0)
- Friday: ropensci, manuscript edits (2011) (0)
- Mbi Day Five Notes (2013) (0)
- Mbi Day Three (2013) (0)
- Computing the value of information in management of a stochastic resource (2012) (0)
- Nceas Workflows Day3 (2014) (0)
- Data Format functions (2010) (0)
- Still puzzling on LR (2010) (0)
- Notebook tweaks: APIs in Ruby, Github hosting (2013) (0)
- 141 scientists can't be wrong? (2011) (0)
- Tools to Manipulate and Query Semantic Data [R package rdflib version 0.2.3] (2020) (0)
- Gitlab And Other Configuration Notes (2014) (0)
- Monday: Warning Signals - Updated graphs (2011) (0)
- Question-and-Answer-post on my use of Docker in research (2015) (0)
- Warning Signals: Comparing Methods on Climate Data (2011) (0)
- iEvoBio lightning talk (2010) (0)
- Sam's Practice talk (2011) (0)
- Semantic Markup Examples For The Lab Notebook (2012) (0)
- Thursday, Friday, Saturday (2012) (0)
- Practice SICB Presentation (2010) (0)
- R interface for fisheries data (2014) (0)
- Stochastic Optimal Control (2011) (0)
- Monday: submodels for full traits (2011) (0)
- Response To Software Discovery Index Report (2014) (0)
- Nonparametric Bayes Summary Ideas (2013) (0)
- ESA personal notes: people, goals (2011) (0)
- Reading and potential examples for talk to ERE next week (2013) (0)
- Meeting with Alan (2010) (0)
- rrdf: Release 2.2.1 (2015) (0)
- adaptive-dynamics Simulations (2010) (0)
- Warning Signals -- still in code development (2010) (0)
- Saturday: projects, reading, markdown notebook-technology (2012) (0)
- Monday: Warning Signals Manuscript (2011) (0)
- Gaussian process inference on sample functions (2012) (0)
- Friday's reading (2011) (0)
- Figures 3 And 4 For Policycosts (2012) (0)
- Tuesday notes: package work mostly. (2011) (0)
- Optimal control -- costs to policy shifts (2011) (0)
- Bootstrapping the independent alpha-sigma models (2010) (0)
- Lab Notebook, 2010 (2012) (0)
- varying recruitment function, noise form, and harvesting cost (2012) (0)
- Are open lab notebooks considered prior publication (2012) (0)
- Open F1000 reviews (2011) (0)
- Coreos And Other Infrastructure Notes (2014) (0)
- Prep for ERE talk (2013) (0)
- Tuesday -- two insights (2011) (0)
- Xml Parsing Strategies (2013) (0)
- Data to Knowledge Day 1 (2012) (0)
- Warning Signals Research (2010) (0)
- rrdf: Release 2.1.2 (2015) (0)
- Formal Semantics With Reml (2013) (0)
- Limits to the detection of early warning signals of population collapse (2012) (0)
- Stochastic Dynamic Programming With Gaussian Process Approx (2012) (0)
- Ecological Metadata as Linked Data [R package emld version 0.5.1] (2020) (0)
- Implementing warning signals metrics (2010) (0)
- Real World Challenges In Reproducible Research Code (2014) (0)
- Collected notes from past few days (2013) (0)
- Weds & Framing warning signals manuscript (2011) (0)
- Alex Pfaff seminar, meeting (2012) (0)
- Wednesday - various logistics, then checking likelihood calculation (2011) (0)
- Article Formats for R Markdown [R package rticles version 0.17] (2020) (0)
- Optimal Control examples continued: Bellman, Dynamic Programming (2011) (0)
- Revisions on Prosecutors Fallacy (2012) (0)
- cboettig/pmc: PMC v1.0.2 released to CRAN (2017) (0)
- follow up from Fri discussions: Revisiting post-predictive evaluation (2010) (0)
- Updates On Managing References (2013) (0)
- Create Lightweight Schema.org Descriptions of Data [R package dataspice version 1.0.0] (2020) (0)
- NEON Data Store [R package neonstore version 0.3.3] (2020) (0)
- pdg-control Training Problem II update (2012) (0)
- Exploring Jekyll layout (2012) (0)
- Relevant initiatives from today's Big Data press release (2012) (0)
- Bifurcation or state tipping: assessing transition type in a model trophic cascade (2019) (0)
- DataCite Day 1 (2011) (0)
- Empirical Demonstration Of That Clever Derivation (2013) (0)
- Reflecting on five years of the open lab notebook (2015) (0)
- Training Problem 2 update (2011) (0)
- Tuesday: active adaptive management, a first solution (2012) (0)
- Tgp Mcmc For Gaussian Processes (2012) (0)
- Tuesday - Evolution/wrightscape talk & sundry (2011) (0)
- 'Programmatic Interface to the 'openfisheries.org' API' (2016) (0)
- Tuesday - Berkeley visits (2011) (0)
- Docker Machine Notes (2015) (0)
- Notebook features: reproducible code (2013) (0)
- Scholarly Infrastructure Thoughts (2013) (0)
- DoE renewal and a year in review (2010) (0)
- Migrating From Wordpress To Jekyll (2012) (0)
- Whitehouse Open Data Memorandum (2013) (0)
- Thursday: Warning Signals (2011) (0)
- More labrid plots (2011) (0)
- Monday: some code-tricks, Algorithms group planning (2011) (0)
- Journey to freedom - a code's tale of open source license migration (2012) (0)
- Some Notes on Open Notebooks, Open peer review practices. (2011) (0)
- Exit Seminar to Center for Population Biology: Regime Shifts in Ecology and Evolution (2012) (0)
- To podcast or not to podcast university lectures (2011) (0)
- Friday: writing post-doc applications (2011) (0)
- Notes of the Week (1921) (0)
- Power in trees continues (2010) (0)
- Thursday: Warning Signals writing, figures, segue (2011) (0)
- Notebook Design Notes (2014) (0)
- The Evolutionary Seesaw: Origins of biodiversity? (2012) (0)
- Algorithms group: MCMCMC (2011) (0)
- Exploring Difficulties with Existing Methods continued (2010) (0)
- pdg-control PDG group, Tasks (2011) (0)
- Warning signals: summary statistic performance at varying sampling effort (2011) (0)
- Warning Signals in Ecological Systems: Revisions and Drake & Griffen Data (2011) (0)
- Bodega Workshop Day 4 (2010) (0)
- Generalizing the multi-type OU process- continued (2010) (0)
- Two routes to adaptive branching (2011) (0)
- Monday: Writing, Mendeley groups, Notebook plugin tweaks (2011) (0)
- Monday: ESA Conference (2011) (0)
- R Client for the Lagotto Altmetrics Platform (2015) (0)
- The promise of U.S. private lands for reaching 21st century conservation targets (2021) (0)
- Notebook features: digital archiving (2013) (0)
- Robert Hijmans on Models to predict sp response to climate change (2011) (0)
- Exploring Approximate Dynamic Programming Approaches (2013) (0)
- Containerizing My Development Environment (2014) (0)
- Tuesday, simulations & appendix (2011) (0)
- Phylo Monte Carlo for diversification rates (2011) (0)
- Sunday: scaling, runs (2011) (0)
- Wainwright Lab Meeting (2010) (0)
- ropensci/rdflib: v0.2.3 (2020) (0)
- Nimble Model Construction (2015) (0)
- Thoughts on the New Policies for Data Archiving at NSF and in Common Journals (2010) (0)
- Weds: Final round edits (2011) (0)
- Tues: Research, seminar (managing for resilience), talk (future of libraries), etc... (2012) (0)
- Data Uris For Image Archives (2013) (0)
- Misc Notes On Cloud Providers (2015) (0)
- Software Sustainability Issues In R (2014) (0)
- Warning Signals, Power and Sufficient Statistics (2011) (0)
- After the games are over: decay of the Olympic Village effect following invasion implies a trade-off between dispersal and fitness (2015) (0)
- TreeBASE interface continued... (2011) (0)
- Archive and Unarchive Databases Using Flat Files [R package arkdb version 0.0.12] (2021) (0)
- Multivariate normal random variables (2010) (0)
- Meeting with Graham and Peter (2010) (0)
- Effective warning signals (2010) (0)
- Implementing an example of low and high power trees (2010) (0)
- nonparametric-bayes: v0.2.0 (2014) (0)
- Reflections from #scio11: Saturday's Open Science Track (2011) (0)
- Forking The R Journal (2013) (0)
- Monday Treebase Manuscript Writing (2012) (0)
- Thursday: sending off paper draft, starting applications (2011) (0)
- Meeting with Sam (2010) (0)
- Parametric Bayesian Example (2013) (0)
- Starting An Eml Package For R (2013) (0)
- iEvoBio day two (2010) (0)
- Lab Notebook, 2012 (2013) (0)
- Writing reproducibly in the open with knitr (2012) (0)
- Dryad API interface (2013) (0)
- Wednesday: Simulated model fit analysis on wrightscape, parrotfish tree (2011) (0)
- Further treatment of the limiting models (2010) (0)
- Stability analysis on fished and unfished dynamics. (2012) (0)
- SDP solution for allee model (2011) (0)
- Red Noise (aside exercise) (2010) (0)
- Daniel Gp Example (2015) (0)
- Notes on value of information runs with uniform noise (2012) (0)
- Sunday: Warning signals edits continue (2011) (0)
- Wednesday: migrating codes into MPI (2011) (0)
- wrightscape / release of constraint (2012) (0)
- Note On Notebook Figures (2012) (0)
- Big Picture Comparative Phylogenetics (2010) (0)
- Isees Training Workshop Day 1 (2013) (0)
- Workflows Working Group Day 1 (2014) (0)
- Exploring Gp Model Space (2012) (0)
- Scratch Notes While Outlining Talk (2014) (0)
- Comparative Phylogenetics Notebook (2010) (0)
- Ropensci Unconf Teaching Session (2015) (0)
- Sunday: a few Treebase R package updates (2011) (0)
- A few large data problems in Ecology & Evolution (2011) (0)
- Coreos Docker Registries Etc (2014) (0)
- F1000-Research publishing for ecologists (2013) (0)
- Short note: Trait diversification rates controlled by other traits (2010) (0)
- Multiple uncertainty corrected (2012) (0)
- Tuesday: Figures, figures, figures (2011) (0)
- CPB thesis proposal (2010) (0)
- Towards a meaningful warning signal metric (2010) (0)
- Pdg Control Updates (2012) (0)
- a day of writing (2010) (0)
- Nonparametric Bayes Comparisons (2012) (0)
- CSGF Conference Thursday (2010) (0)
- TreeBase: exploratory exercises in database-driven phylogenetics (2011) (0)
- Policy costs to changing mangement, TP 1b: Apples to Apples (2012) (0)
- Actually starting at Arkin Lab (2010) (0)
- Jordan's bigdata talk in Math/Stats series (2012) (0)
- Additional sources of noise (Sethi 2005) (2012) (0)
- Intro Ecology Lecture at University of the Pacific (2011) (0)
- ESA 2012 Abstract (2012) (0)
- Synthesizing forecasts to inform decision‐making and advance ecological theory (2023) (0)
- Parameter uncertainty in stochastic control problems (2012) (0)
- Title Early warning signals : The charted and uncharted territories Permalink (2013) (0)
- memory management, cron (2011) (0)
- My research workflow, based on Github (2012) (0)
- Challenges in estimating phylogenetic signal (2010) (0)
- evolution Research Abstract (2010) (0)
- Algorithms Discussion Group: algorithms Continued (2011) (0)
- UPS and data vs optimal control (2014) (0)
- A High-Performance Local Taxonomic Database Interface [R package taxadb version 0.1.0] (2020) (0)
- From Theory to Application: Addressing Outstanding Challenges to Operationalizing Resilience (2018) (0)
- Data to Knowledge Conference, UC Berkeley: application (2012) (0)
- Semi Analytic Posteriors (2013) (0)
- Self Destroy Droplet On Completion (2014) (0)
- Lunch with Wainwright Lab (2010) (0)
- Notes during revisions on phylogenetics manuscript (2011) (0)
- UC Davis graduate student symposium proposal (2012) (0)
- Handling other sources of noise (2011) (0)
- Extending ape::phylo class to NeXML: (2013) (0)
- Estimating phylogenetic signal (lambda) on large trees (2011) (0)
- Lsn Model Considerations (2015) (0)
- Notes of the Week (1921) (0)
- Popbio Core Review Notes (2008) (0)
- Notes from chat with Duncan (2013) (0)
- Implementing Likelihoods for quadratic models (2010) (0)
- Power in trees (2010) (0)
- An R Interface to 'figshare' (2015) (0)
- Monday and some phylogenetics (2010) (0)
- Updating examples of stochastic structured population dynamics (2010) (0)
- Discrete Grid Notes (2014) (0)
- Summarizing Earlier Warning Signal Under Control Notes (2013) (0)
- Parrotfish Model choice (2010) (0)
- Training problem 2: the economist's problem statement (2011) (0)
- Training Problem II (2011) (0)
- Open Science Post Doc (2015) (0)
- Wednesday: appendices; parameter distributions (2011) (0)
- Numerical challenges in likelihood estimation of time-dep OU models (2011) (0)
- Conference call w- Bob and Brett (2010) (0)
- Optimal control sample problems (Mostly continuous time by Pontryagin principle) (2011) (0)
- Rnexml Semantic Considerations (2013) (0)
- Docker tricks of the trade and best practices thoughts (2014) (0)
- Thurs: evolution likelihood (2010) (0)
- Exploring Power in Warning Signals (2010) (0)
- Value of information, cost of bias (2012) (0)
- Code Development for Exploring Regimes Shifts (2010) (0)
- Notebook Features: parsing linked data in the semantic notebook (2013) (0)
- Wednesday - forage fish & cascades (2011) (0)
- Monday, misc notes (2011) (0)
- Gp Nimble Explore (2015) (0)
- ievobio Day 2 (2011) (0)
- Friday - updated wrightscape results - simulated examples (2011) (0)
- Warning Signals examples and tracking graphs (2011) (0)
- Warning signals of differing stregths by likelihood and by indicator (2011) (0)
- ISEES software lifecycle and components workshop, Day 1 (2013) (0)
- Multitype OU process interfaces (2010) (0)
- Friday: some random notes (2012) (0)
- Thurs: writing section on comparing to AIC (2010) (0)
- CSGF Conference Day 2 (2010) (0)
- End of NCEAS & the legacy of synthetic data (2011) (0)
- Startup Culture And Platforms For The Academy (2014) (0)
- Lazy Evaluation Thoughts (2015) (0)
- Tues: evolution thoughts while writing... (2010) (0)
- Bodega Phylogenetics Workshop Day 3 (2010) (0)
- Avoiding tipping points in the management of ecological systems: a non-parametric Bayesian approach (2013) (0)
- Weds: Parrotfish data set analysis (2011) (0)
- Warning Signals -- Where are we now? (2010) (0)
- Thursday: parrotfish analysis (2011) (0)
- Early warning signals: the charted and uncharted territories (2013) (0)
- Infering Partially Observable Markov Processes with Iterative Particle Filtering (2012) (0)
- Saturday: working on computational scaling, ion, etc (2011) (0)
- treeBASE R interface: proposal for #iEvoBio (2011) (0)
- Bayesian Parametric Uncertainty Sdp (2013) (0)
- CPB : David Collar (2010) (0)
- Finishing up my #SICB Presentation (2011) (0)
- Exploring Difficulties with Existing Methods (2010) (0)
- Sunday: Warning Signals (2011) (0)
- Warning Signals on Real Data (2011) (0)
- Ensemble simulations of beetle dynamics (2010) (0)
- An rfigshare tutorial (2012) (0)
- RDF Library Bindings in R [R package redland version 1.0.17-14] (2020) (0)
- Robust information from phylogenetic trees (2010) (0)
- Is it time to retire Pagel's lambda? (2013) (0)
- Wrong picture, wrong model: why warning signals don't look like rare events (2010) (0)
- Tuesday: manuscript and appendix edits (2011) (0)
- Sckott/Gbifms: Gbif Ms Preprint (2017) (0)
- Analytic Solution To Multiple Uncertainty (2012) (0)
- Early Warning Signals in Coral Dynamics -- Economic analysis of risk (2011) (0)
- Simpler Nimble Dai Model (2015) (0)
- Sckott/Gbifms Preprint (2017) (0)
- Some Collaborative Tools for Science (2012) (0)
- Interfaces for databases: TreeBASE, Dryad, DataONE (2011) (0)
- Monday - Sweave workflow (2012) (0)
- Writing, Cloud Computing, and #scio11 (2010) (0)
- a drat repository for rOpenSci (draft for ropensci blog) (2015) (0)
- Approximate Bayesian Computing (algorithms) methods (2011) (0)
- RNeXML v2.0.0 (2014) (0)
- Gpdd And Kalman Exploration Continued (2015) (0)
- Reflections on the Mozilla Science Code Review Pilot (2013) (0)
- Sat: evolution -- porting tree transformations to OUCH? (2010) (0)
- discriminating early bursts (2011) (0)
- Notebook Maintenance And Scaling (2015) (0)
- Data Management Workshop at UC Davis Center for Population Biology: Video archive (2011) (0)
- Accessing phylognenies in TreeBASE from R (2011) (0)
- Comparative Phylogenetics Talk (2010) (0)
- prosecutor's fallacy initial look (2012) (0)
- Summary of Structured Population noise so far (2010) (0)
- Notes On Tricks In Manuscript Submission And Collaboration (2014) (0)
- Status on Structured Populations (2010) (0)
- Puzzled over the two-step jump process results (2010) (0)
- Sunday -- warning signals manuscript (mostly) (2011) (0)
- Making slides for Evolution meeting (2010) (0)
- A comparison of nonparametric Bayesian Gaussian process estimates to standard the parametric Bayesian approach (2013) (0)
- Semantically Rich I/O for the 'NeXML' Format (2015) (0)
- Thursday: Fun with databases continued (2011) (0)
- Download and Parse Github Issues (2015) (0)
- Thoughts On Harte Interview (2014) (0)
- Matt Helmus visit (2011) (0)
- Bodega evolution Tutorial: behind the scenes difficulties in R packages (2011) (0)
- Tuesday: Warning Signals Data Wrangling (2011) (0)
- Theoretical Limits to Forecasting in Ecological Systems (And What to Do About It) (2019) (0)
- Loo Botsford, CPB seminar (2011) (0)
- Integrating Github Project Repos Into The Notebook (2014) (0)
- Ievobio Lightning Talk Proposal (2012) (0)
- Correcting for the mean dynamics (2010) (0)
- Algorithms group: Hidden Markov Models (2011) (0)
- Progress this week, by project (2012) (0)
- Mbi Day Two (2013) (0)
- Structured Population Dynamics (2010) (0)
- Ram Legacy Database Explore (2015) (0)
- Phylogenetic Signal metrics (2011) (0)
- Lessons Learned In Writing Dockerfiles (2014) (0)
- getting signal from autocorrelation (2012) (0)
- Individual based simulation with gamma waiting times (2010) (0)
- Gpdp Via Mdptoolbox Cont (2015) (0)
- Read and Write Ecological Metadata Language Files [R package EML version 2.0.4] (2020) (0)
- some configuration notes: RStudio setup, syntax highlighting in sweave (2011) (0)
- Spatial Warning Signals, power, etc (2010) (0)
- Notes on Bokma 2010: evolution in drifts and jumps (2011) (0)
- packrat and rmarkdown (2014) (0)
- RDF Library Bindings in R (2016) (0)
- Comparing to Analytic Dynamics (2010) (0)
- Deep challenges to dynamic documentation in daily workflows (2014) (0)
- CSGF 2010 Computing Practices Survey Summary (2011) (0)
- Mdptoolbox Allen Model (2015) (0)
- Warning signals manuscript (2010) (0)
- Esa Changes Arxiv Policy Following Community Comments (2012) (0)
- Meeting w- Alan (2010) (0)
- Why ONS? From a discussion with friends (2011) (0)
- Tipping Points Comment In Nature (2013) (0)
- Isees Workforce Development Day 2 (2013) (0)
- Notebook features: an introduction (2013) (0)
- Warning signals: Indicators vs Likelihood continued (2011) (0)
- Automated Knitr In Jekyll (2015) (0)
- Tuesday - SDEs then back to phylogenetics (2010) (0)
- Friday: wrightscape, ggplot, wp memory (2011) (0)
- Van Kampen Expansion and Stochastic population dynamics (2011) (0)
- Exact Simulation by the Gillespie Algorithm (2011) (0)
- Pretty Darn Good Control Working Group (2011) (0)
- Early warning signals presentation notes (2011) (0)
- A new phylogenetic comparative method: detecting niches and transitions with continuous characters (2010) (0)
- Tues: Fitting the limiting OU models to each bifurcation (2010) (0)
- Difficulties with tgp; taking custom mcmc approach for GPs (2013) (0)
- Building a semantic notebook (2011) (0)
- Better Tagging Practices (2012) (0)
- A new twist on the approach (2010) (0)
- Sunday - manuscript and simulations (2011) (0)
- Haldanes Sieve Guest Post (2013) (0)
- Multiple Uncertainty Value Function Iteration (2012) (0)
- Reviews, organization, rewrites (2010) (0)
- DIMACS Workshop on Global Change (2014) (0)
- Wrightscape: a brief tutorial (2011) (0)
- Writing: Warning Signals Mansucript (2011) (0)
- Open Science Summit Day 3 (2010) (0)
- CSGF Conference- HPC Workshop (2010) (0)
- Reproducible research environments with Docker (2014) (0)
- Testing out a Jekyll-based notebook (2012) (0)
- Friday, warning signals writing, etc (2011) (0)
- Monday: Algorithms Discussion Group, EM finished (2011) (0)
- Wrightscape labrid/parrotfish results; Evolution pres (2011) (0)
- Delayed Release Archives (2013) (0)
- rropensci and some taxonomy in R with taxize (2011) (0)
- An Interface for Content-Based Identifiers [R package contentid version 0.0.9] (2021) (0)
- Welcome to my Lab Notebook (2010) (0)
- Auteur plots for reef fish jaws and monkey brains -- needs tweaking (2011) (0)
- Generate 'CodeMeta' Metadata for R Packages [R package codemetar version 0.1.9] (2020) (0)
- finer sampling in prosecutor's fallacy (2012) (0)
- Getting the details right on the Fourier Transform approach to likelihood (2010) (0)
- Open Notebook Science Abstract (2010) (0)
- Rethinking Beetles Noise (2010) (0)
- Phylogenetic Monte Carlo for the Laser package (2011) (0)
- Review Of Progress On Packages (2014) (0)
- Santa Cruz Postdoc (2012) (0)
- Deviations from S = D (2012) (0)
- Hastings Beetle Workshop (2010) (0)
- Thursday: reviewing edits, ropensci, computers. (2011) (0)
- Tuesday: phylogenetics- wrightscape coding (2011) (0)
- [Rp] Fluctuation domains in adaptive evolution (2020) (0)
- FishBASE from R: some XML parsing (2011) (0)
- Follow-up on Parametric Bootstrapping (2010) (0)
- Nonparametric Bayes Wrapping Up Sensitivity (2013) (0)
- Updates to Code (2010) (0)
- Thursday - some parrotfish & labrid runs on method2 (2011) (0)
- Citation tools & Future of Publishing (2011) (0)
- Academic Year 2011 Summary (2011) (0)
- Phylogenetics - Research Proposal (2011) (0)
- Knitr with flickr and wordpress (2012) (0)
- Esa 2012 Conference (2012) (0)
- Adaptive Dynamics Abstract (2010) (0)
- Fisheries stock assessments for early warning (2011) (0)
- Mdptoolbox Ex 2 (2015) (0)
- The Future of Data: Plans for a UC Davis workshop (2011) (0)
- Monday: Evolution manuscript revisions; early burst models, etc (2011) (0)
- pdg-control Day 1 goals by training problem (2012) (0)
- Archiving the lab notebook on figshare (2013) (0)
- Site configuration: file sharing notes (2011) (0)
- Sun: Visualizing my coding over the past year (2010) (0)
- Nsf Math Bio Postdoc (2013) (0)
- Wednesday: Data wrangling into graphs (2011) (0)
- Likelihood Ratio Manuscript (2010) (0)
- Bodega Workshop Presentations (2010) (0)
- iEvoBio day one (2010) (0)
- DataCite Day 2 (2011) (0)
- Beetle dynamics exploration & adjustments (2010) (0)
- Warning signals: summary stats vs likelihood on real and simulated data (2011) (0)
- Parameter exploration in adaptive dynamics branching (2010) (0)
- Lab Notebook, 2008 (2015) (0)
- Using TreeBASE from R (2012) (0)
- Dear DockerHub users: please configure your repository links (2014) (0)
- Reading the Secrets of Biological Fluctuations (2010) (0)
- CSGF Conference Notes (2011) (0)
- Thursday: writing; some latexdiff notes (2012) (0)
- UC Davis Student Assembled Panel on Data Management Issues (2011) (0)
- Is statistical software harmful (2014) (0)
- Github Issues Tracker: The Perfect Research Todo List (2012) (0)
- Project tracking (Ecology) (2012) (0)
- Better dynamic documents (Sweave) with syntax highlighting, caching, etc (2011) (0)
- Warning Signals writing (2011) (0)
- Large Intrinsic Noise (2010) (0)
- Derin And Alan Meeting (2010) (0)
- Bridging adaptive management and reinforcement learning for more robust decisions (2023) (0)
- Notebook features: SHA Hashes (2013) (0)
- MathJax the smart way: Child Themes (2011) (0)
- Friday: Notes on Labrids, notes on Transforms and size-corrections (2011) (0)
- Tuesday: Parrotfish/wrightscape runs and code modification (2011) (0)
- Solarized Colors with Twitter-Bootstrap? (2012) (0)
- Wednesday MCMC and MLEs for wrightscape (2011) (0)
- Null Distribution Width Minor Puzzle (2013) (0)
- Slides from my talk at Evolution 2011 (2011) (0)
- Fun Standardizing Non Standard Evaluation (2015) (0)
- Weds: Example sets & more EC2 (2010) (0)
- Visuals for Communicating Uncertainty (2012) (0)
- Access for Dryad Web Services (2015) (0)
- Release of constraint (2011) (0)
- Parrotfish-Wrasse example (2010) (0)
- Stochastic impediments to biological diversification (2009) (0)
- Regime Vs State (2013) (0)
- Managing Larger Data on a GitHub Repository [R package piggyback version 0.0.11] (2020) (0)
- Jekyll vs Wordpress (2012) (0)
- A bit of work on my socialR package for reproducible research (2011) (0)
- nonparametric-bayes: framing the issues for the manuscript (2013) (0)
- Bootstrapping Likelihood ratios (2010) (0)
- non-optimal outcomes of optimal solutions (2011) (0)
- Friday: Optimal Control (2011) (0)
- Musings On Conservation Literature (2013) (0)
- Admb Basic Example (2013) (0)
- Identifying Warning Signals (2010) (0)
- Warning Signals - Manuscript touch-ups (2011) (0)
- Open Science Literature Highlights (2014) (0)
- evolution today: Discussion groups, writing, etc (2010) (0)
- Warning signals: Likelihoods Straight-up (2010) (0)
- McElreath Hierarchical Models (2011) (0)
- Likelihood Ratio Paper- Power in Trees (2010) (0)
- Wednesday - wrightscape runs and various other things (2011) (0)
- Three Interfaces For Docker (2014) (0)
- Stochastic policy costs (2012) (0)
- Mbi Day Four Notes (2013) (0)
- Progress on warning signals (2011) (0)
- Notes of the Week (1921) (0)
- Updates Across Various Projects (2013) (0)
- Extending Data Frame Class (2013) (0)
- 2015: Carl Boettiger's Open Lab Notebook, Archive for 2015 (2016) (0)
- Reproducible Research, Large data sets, and SI2 (2011) (0)
- Fri: extending Geiger to Monte Carlo method (2010) (0)
- Integrating Open Lab Notebooks with Online Databases (2012) (0)
- Warning Signals Literature: when stats are and aren't attempted (2011) (0)
- linking binaries from other containers (2014) (0)
- rfishbase demo: Are there more Goby or Labrid species on reefs? (2011) (0)
- Evolution 2012 Conference, Day 1 (2012) (0)
- Likelihoods for quadratic models cont (2010) (0)
- Algorithms Discussion Group: MCMC (2011) (0)
- Integrating Over Posterior Gp (2013) (0)
- Monday: algorithms Meeting (2011) (0)
- Drone Ci And Docker (2014) (0)
- Warning Signals In Management (2012) (0)
- Tuesday: pandoc citations notes, various (2012) (0)
- Project tracking (Evolution) (2012) (0)
- Saturday: Post ESA, NSF Intersections post-doc? (2011) (0)
- Power in simple tests (2010) (0)
- Parallel at last (2010) (0)
- Felsenstein (web) seminar (2011) (0)
- Tuesday: PMC, confidence intervals; screen code-tricks (2011) (0)
- Friday: ESA Practice Talk (2011) (0)
- How google views me: by search terms or citation counts? (2011) (0)
- Warning Signals with SDEs (2010) (0)
- Saturday: Fisheries Data Survey, Warning Signals (2011) (0)
- Updates to socialR package (2011) (0)
- Monday: meetings, notebook (2011) (0)
- Warning Signals in Fish Collapse (2012) (0)
- ropensci/RNeXML: RNeXML 2.0.8 (2017) (0)
- Birth-death Tutorial for PBG Core (2011) (0)
- Optimal Control Exploration (2011) (0)
- a few notes on various projects (2013) (0)
- Getting the right distributions (2011) (0)
- Evolution 2010 Day 3 (2010) (0)
- Prior Distributions For Tgp Mcmc (2012) (0)
- Lab Notebook, 2011 (2012) (0)
- Warning Signals data examples (2011) (0)
- Some Rfishbase Updates (2013) (0)
- Thrusday - corrected calculation, implementing. (2011) (0)
- Algorithms Group, HMM meets EM (2011) (0)
- Parameter Estimates for Labrid-Parrotfish model (2010) (0)
- So, you're active on Research Gate? (2013) (0)
- Friday (lab group meeting notes) (2012) (0)
- Phylogenetic Tree formats (2010) (0)
- Data Management Plan (2012) (0)
- Data Science Regional Hubs (2015) (0)
- Likelihood Ratio Paper (2010) (0)
- Sunday -- edits and appendices (2011) (0)
- Comforting Trends In Scientific Software Use (2013) (0)
- Is BM nested in OU? Understanding likelihoods of ouch (2011) (0)
- why I sign my reviews (2014) (0)
- An appropriate amount of fun with docker (2014) (0)
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What Schools Are Affiliated With Carl Boettiger?
Carl Boettiger is affiliated with the following schools: