Pinned Repositories
dada2-reference-databases
Code to create 16S taxonomy training files formatted for DADA2
differential-abundance-theory
A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.
mbsim
R package for simulating microbiome experiments
mc_datasets_backup
Datasets for investigating experimental bias in metagenomics measurements
metacal
Metagenomics calibration R package
mgs-bias-manuscript
Analysis for McLaren, Willis, and Callahan (2019)
phyloseqpp
Phyloseq extensions and functions for tidier analysis of microbiome data
qmm
Quantitative Microbiome Measurement
speedyseq
Speedy versions of phyloseq functions
animal-cdiff
mikemc's Repositories
mikemc/mgs-bias-manuscript
Analysis for McLaren, Willis, and Callahan (2019)
mikemc/phyloseqpp
Phyloseq extensions and functions for tidier analysis of microbiome data
mikemc/mc_datasets_backup
Datasets for investigating experimental bias in metagenomics measurements
mikemc/metaphlanr
Post-process MetaPhlAn2 output in R
mikemc/bias-estimation
Notes and code for bias-estimation methods
mikemc/blog
mikemc/kiss
Stupidly simple Hugo blogging theme
mikemc/manis-hugo-theme
Sweet little Hugo's theme for personal website
mikemc/microbiome-cookbook
R microbiome cookbook
mikemc/roxygen
mikemc/test_site
mikemc/valley-crossing-subdivided
Source code for simulations and numerical predictions for the manuscript "Fitness-valley crossing in subdivided asexual populations" (preprint available at http://biorxiv.org/content/early/2016/10/08/079624).
mikemc/vim_config
mikemc/vo2pandoc
Script that converts vim outliner syntax into pandoc markdown