Grunwald lab

Repositories

• OomyceteDB

  A new barcode for characterizing oomycete communities.
  HTML 1 1 5 0 Updated Oct 5, 2020

• metacoder

  Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data

  cran r taxonomy hierarchical trees pcr metabarcoding
  R 21 82 102 0 Updated Sep 12, 2020

• poppr

  🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction

  r multilocus-genotypes genetic-distances population-genetics multilocus-lineages genetic-analysis populations
  R 21 44 13 1 Updated Sep 7, 2020

• vcfR

  Forked from knausb/vcfR

  Tools to work with variant call format files
  R 44 2 0 0 Updated Sep 1, 2020

• Population_Genetics_in_R

  A primer for computational tools to analyze genetics of populations in R
  HTML 32 51 11 0 Updated May 30, 2020

• Supplements_Knaus_Pinfestans_CNV

  Supplements for Knaus et al. manuscript on changes variation in genic copy number in Phytophthora infestans and relatives.
  0 1 0 0 Updated May 12, 2020

• effectR

  An R package to call oomycete effectors
  R 5 9 2 0 Updated Apr 17, 2020

• Ph_ramorum_ORforests

  Analysis of P. ramorum populations in Curry County, OR
  R 0 0 2 0 Updated Mar 13, 2020

• metacoder_documentation

  Documentation for the metacoder R package
  HTML 2 0 5 0 Updated Mar 5, 2020

• P_infestans_CNV

  Phytophthora infestans CNV project
  HTML GPL-3.0 0 0 0 0 Updated Feb 14, 2020

• oomycetedbtools

  An R package for some of the code used to keep oomycetedb.org up to date.
  R 0 0 0 0 Updated Nov 22, 2019

• GBS-Pcinnamomi

  Forked from shankarkshakya/GBS-Pcinnamomi
  Shell 3 0 0 1 Updated Apr 26, 2019

• MexicoPopulations
  HTML 1 0 0 1 Updated Apr 26, 2019

• PhPlurivora_OR_Nurseries_GBS

  Publication-ready analysis and figures for Carleson et al. 201x
  HTML 1 0 0 0 Updated Dec 5, 2018

• analysis_of_microbiome_community_data_in_r

  This is the source code for the "Analysis of Microbiome Community Data in R" ICPP 2018 workshop. The website is available at: https://grunwaldlab.github.io/analysis_of_microbiome_community_data_in_r/
  HTML 13 11 3 0 Updated Aug 8, 2018

• vcfR_documentation

  Forked from knausb/vcfR_documentation

  Documentation for vcfR
  HTML 7 0 0 0 Updated Jun 18, 2018

• ropensci_fellowship_2017

  My application for the 2017 rOpenSci fellowship
  TeX 2 0 5 0 Updated Jan 30, 2018

• rubi-gbs

  Genotyping by sequencing (GBS) analysis of P. rubi and P. fragaraie.
  Shell 1 0 1 0 Updated Oct 5, 2017

• labtools

  An R package for lab notebook upkeep
  R 1 1 0 0 Updated May 10, 2017

• Reproducible-science-in-R

  This site provides information on conducting reproducible science using the R language.
  HTML 6 11 4 0 Updated Nov 2, 2016

• popgen_review_examples

  Examples for population genetics review manuscript
  HTML 1 0 0 0 Updated Oct 17, 2016

• grunwaldlab.github.io

  Our home webpage for GitHub projects
  HTML 0 1 0 0 Updated Oct 4, 2016

• taxa

  Forked from ropensci/taxa
  R 10 0 0 0 Updated Sep 17, 2016

• poppr-poster-aps-2016

  source data for the APS 2016 poster on Tools for analysis of clonal population genetic data in R
  HTML 1 1 0 0 Updated Jul 25, 2016

• quiltr

  R package for making website representations of directories
  R 1 6 19 0 Updated Jul 19, 2016

• audpc_example

  An example analysis for calculating AUDPC using RMarkdown
  HTML 14 2 0 0 Updated Jul 14, 2016

• pinfestans_example

  Example data of P. infestans
  R 10 0 0 0 Updated Jul 12, 2016

• Microbe-ID

  Microbe-ID
  JavaScript 3 4 1 2 Updated Jun 21, 2016

• ezec

  Easy Interface to Effective Concentration Calculations
  R 0 1 1 0 Updated Jun 12, 2016

• popprxl

  Forked from zkamvar/popprxl

  A small package that allows import of GenAlEx data directly into poppr from excel
  R 2 0 0 0 Updated May 25, 2016