Tools for Microbial Data

MeltDB - framework for the analysis of for raw GC- and LC-MS metabolome data sets
Mercator - annotate and classify plant protein and DNA sequences
MetaProteomeAnalyzer - identification of taxonomic and functional relationships between identified proteins
MetFrag - In silico fragmentation for computer assisted identification of metabolite mass spectra
metilene: Differential methylation
MGX - analysis and interpretation of environmental community sequence data
Microbiome Analysis Toolbox
mOTUs - quantification of known (sequenced) and unknown microorganisms at species-level resolution from shotgun sequencing data
muvac: Variant calling pipeline
NGLess - domain-specific language for next-generation sequencing data processing
PATCH - Collection of software solutions for pangenome analyses
PLAST - Pangenome Local Alignment Search Tool
Platon - detection of plasmid contigs within bacterial draft genomes
proGenomes - consistent taxonomic and functional annotations for bacterial and archaeal genomes
Prophane - automatic annotation of metaproteomes
PUBLISSO - open access publishing platform for research articles
QuPE - framework for quantitative proteomics experiments
ReferenceSeeker - determination of closely related reference genomes
rGREAT - Automatic Genomic Regions Enrichment of Annotations Tool (GREAT)
rhdf5 / Rhdf5lib - an interface between HDF5 and R

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