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metacoder

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Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data

R 145 29

Population_Genetics_in_R

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A primer for computational tools to analyze genetics of populations in R

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poppr

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

R 72 26

analysis_of_microbiome_community_data_in_r

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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/

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Reproducible-science-in-R

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This site provides information on conducting reproducible science using the R language.

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krisp

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A lightweight kmer-based algorithm for designing diagnostic CRISPR assays using genome data.

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Showing 10 of 60 repositories

heat-tree Public
A self-contained widget for phylogenetic and taxonomic tree visualization with categorical and continuous variables associated with nodes and tips
grunwaldlab/heat-tree’s past year of commit activity
JavaScript00 0 0 UpdatedDec 17, 2025
metaMapWidgetR Public
R package wrapping meta-map-widget
grunwaldlab/metaMapWidgetR’s past year of commit activity
R00 0 0 UpdatedDec 12, 2025
meta-map-widget Public
Map widget for the PathogenSurveillance pipeline
grunwaldlab/meta-map-widget’s past year of commit activity
JavaScript00 2 0 UpdatedDec 5, 2025
pathogensurveillance Public Forked fromnf-core/pathogensurveillance
Surveillance of pathogens using population genomics and sequencing
grunwaldlab/pathogensurveillance’s past year of commit activity
Nextflow 4MIT 7 0 0 UpdatedNov 1, 2025
pathogensurveillance_publications Public
Documentation for the pathogensurveillance pipeline
grunwaldlab/pathogensurveillance_publications’s past year of commit activity
HTML00 0 0 UpdatedOct 13, 2025
PathoSurveilR Public
Tools to find and manipulate the output of pathogensurveillance
grunwaldlab/PathoSurveilR’s past year of commit activity
R 3 1 5 0 UpdatedOct 13, 2025
SuddenOakDeathSurveillance Public
Phylogeographic Monitoring of Sudden Oak Death Pathogen using Nextstrain
grunwaldlab/SuddenOakDeathSurveillance’s past year of commit activity
R0GPL-3.00 0 0 UpdatedSep 17, 2025
poppr Public
🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction
grunwaldlab/poppr’s past year of commit activity
R 72 26 17 0 UpdatedSep 10, 2025
demulticoder Public
grunwaldlab/demulticoder’s past year of commit activity
R 10 2 0 UpdatedJun 13, 2025
benchmark_demulticoder Public
Scripts and associated intermediates files to accompany demulticoder manuscript
grunwaldlab/benchmark_demulticoder’s past year of commit activity
00 0 0 UpdatedMar 27, 2025