KatjaKo's Stars
NBISweden/workshop-reproducible-research
NBIS/ELIXIR course: Tools for Reproducible Research
eggnogdb/emapper-benchmark
Raw data and scripts used to benchmark eggnog-mapper. Analysis and additional tests cases are provided as a python notebook.
mikemc/speedyseq
Speedy versions of phyloseq functions
benjjneb/dada2
Accurate sample inference from amplicon data with single nucleotide resolution
transcript/samsa2
SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customizable reference databases.
NBISweden/contigtax
Taxonomic classification of metagenomic contigs
paul-buerkner/brms
brms R package for Bayesian generalized multivariate non-linear multilevel models using Stan
tidyverse/ggplot2
An implementation of the Grammar of Graphics in R
MG-RAST/pipeline
The MG-RAST pipeline
cran/taxonomizr
:exclamation: This is a read-only mirror of the CRAN R package repository. taxonomizr — Functions to Work with NCBI Accessions and Taxonomy Report bugs for this package: https://github.com/sherrillmix/taxonomizr/issues
thelovelab/DESeq2
Differential expression of RNA-seq data using the Negative Binomial
KlausVigo/phangorn
Phylogenetic analysis in R
shandley/Microbiome-Analysis-Using-R
Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.
benjjneb/ITS-Workflow
A descriptory pipeline for processing ITS Samples using DADA2
benjjneb/LRASManuscript
Reproducible Analyses accompanying DADA2 + PacBio Manuscript
karthik/wesanderson
A Wes Anderson color palette for R
eggnogdb/eggnog-mapper
Fast genome-wide functional annotation through orthology assignment
tseemann/PEAR
Pair-End AssembeR
bbuchfink/diamond
Accelerated BLAST compatible local sequence aligner.
grunwaldlab/metacoder
Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data
donovan-h-parks/STAMP
Statistical Analysis of Metagenomic Profiles
MG-RAST/MG-RAST-Tools
Repository of script tools, examples, and contributed code for using the MG-RAST API
MG-RAST/matR
Metagenomics Analysis Tools
joey711/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:
MG-RAST/MG-RAST
The MG-RAST Backend -- the API server