scottdaniel

sequence_db

16S_QIIME2

Snakemake based 16S QIIME2 pipeline

abxidx

adonisplus

PCMP_ITS_pipeline

BacDiveR

R client for the DSMZ's Bacterial Diversity Metadatabase (former contact: @katrinleinweber)

bacphene

Imports Bacterial Phenotype Data Into R

Bolivar_med_exp

DEMIC

DEMIC PTR analysis software in the form of an R package

demuxgo

A demultiplexing tool for fastq sequence files

dnabc

Identify DNA barcodes in high-throughput sequencing data files

functree-ng

An interactive radial tree for functional hierarchies and omics data visualization

ITS_PIPITS_BROCC

MetaboAnalystR

R package for MetaboAnalyst

Metabolomics

mpc-autofill

Automating MakePlayingCards's online ordering system

pheatbuilder

R library to build a heatmap in stages

picrust2

Code, unit tests, and tutorials for running PICRUSt2

quantable

Streamlines descriptive analysis of quantitative mass spectrometry data.

SampleRegistry

Web application to keep track of samples sequenced

sbx_gene_clusters

sbx_kraken

Extension for running kraken2 and kraken2-biom

sbx_mapping

Extension to map reads against a set of reference genomes

sbx_metaphlan

Sunbeam extension for running MetaPhlAn

sbx_metaphlan4

Sunbeam extension for metaphlan 4 (compatible with sunbeam 4)

seqBackup

ShotgunUnifrac

sunbeam

A robust, extensible metagenomics pipeline

waldo_examples

Just some example using the waldo package

ZIBR

Zero-Inflated Beta Random Effect model