Pinned Repositories
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
metaphlanr
Post-process MetaPhlAn2 output in R
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/speedyseq
Speedy versions of phyloseq functions
mikemc/metacal
Metagenomics calibration R package
mikemc/differential-abundance-theory
A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.
mikemc/mgs-bias-manuscript
Analysis for McLaren, Willis, and Callahan (2019)
mikemc/phyloseqpp
Phyloseq extensions and functions for tidier analysis of microbiome data
mikemc/mbsim
R package for simulating microbiome experiments
mikemc/neorg-doom
Module for Neorg inspired by Doom Emacs
mikemc/psplyr
A Grammar of Data Manipultation for Phyloseq Objects
mikemc/qmm
Quantitative Microbiome Measurement
mikemc/barCoder
barCoder will generate a list of sequences that can be directly synthesized and inserted into the target genomes via user-specified targeting vectors.
mikemc/dada2
Accurate sample inference from amplicon data with single nucleotide resolution
mikemc/dada2-reference-databases
Code to create 16S taxonomy training files formatted for DADA2
mikemc/dhmcabpat
mikemc/fido
Multinomial Logistic-Normal Models (really fast)
mikemc/InSilicoSeq
:rocket: A sequencing simulator
mikemc/mc-datasets
Datasets for investigating experimental bias in metagenomics measurements
mikemc/momspi-data
mikemc/mplyr
mikemc/neorg
Modernity meets insane extensibility. The future of organizing your life in Neovim.
mikemc/notebook
Personal open research notebook
mikemc/nvim-config
mikemc/phyloseq
phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
mikemc/r-inla
mikemc/R.nvim
Neovim plugin to edit R files
mikemc/rd-notebook
mikemc/recipes
A preprocessing engine to generate design matrices
mikemc/vivo-vitro
mikemc/website
personal website
mikemc/website-1
Code and files for the main nf-core website.
mikemc/website-hugo
personal website