Tools for Microbial Data

iTOL - display and manipulation of phylogenetic trees
KNIME - A modern platform for data analytics
MassBank - repository of mass spectra of small chemical compounds
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
MetaProtServ - Metaproteomics data analysis and interpretation
MetFrag - In silico fragmentation for computer assisted identification of metabolite mass spectra
MGX - analysis and interpretation of environmental community sequence data
MOCAT - modular and scalable software pipeline for analyzing shotgun metagenomics datasets
Patient Searchtool - Database for patient specifications presenting minimal study datasets
ProCon - application for conversion into the standard formats mzIdentML / PRIDE XML
Prophane - automatic annotation of metaproteomes
QuPE - framework for quantitative proteomics experiments
ReadXplorer - exploration and evaluation tool for NGS data
rhdf5 / Rhdf5lib - an interface between HDF5 and R
SIAMCAT - modular framework for the statistical inference of associations between microbial communities and host phenotypes
SILVA - A comprehensive on-line resource for quality checked and aligned ribosomal RNA sequence data.
SILVAngs - A data analysis service for ribosomal RNA gene (rDNA) amplicon reads from high-throughput sequencing (NGS) approaches
SMART - resource providing simple identification and extensive annotation of protein domains via sequence homology searches