metaproteomics

A tool for representing genomic potential and transcriptomic expression into KEGG pathways

Meta-Omics Software for Community Analysis

MetaProteomeAnalyzer (MPA) software for analyzing and visualizing MS-based metaproteomics data.

🌐 Unipept frontend for metaproteomics data analysis

gNOMO2 allows integrated multi-omics analyses of microbiomes

Mistle is a fast spectral search engine. It uses a fragment-indexing technique and SIMD intrinsics to match experimental MS2 spectra to large spectral libraries at a high performance.

Sipros 4 for stable isotopic mass spectrum metaproteomics proteomics

Interactive visualisation and data annotation for meta-omics data

mPies: metaProteomics in environmental sciences

Transformer-based de novo sequencing (Casanovo) + database searching with rescoring (Sage + Mokapot). For metaproteomics datasets

Peptide-centric functional enrichment tool

Pout2Prot converts Percolator output files to protein group and subgroup files using Occam's razor or anti-Occam's razor. These output files can directly be used in Prophane for further downstream taxonomic and functional analysis

A novel tool for linking peptide with taxonomic and functional information with OTF in Metaproteomics.

Unipept command line interface

Sipros5, a proteomics tool designed for identifying and quantifying isotopically labeled proteins—especially 13C-15N-18O-2H-labeled—in complex microbial communities using scalable and modular high-performance computation.

tools collection of Sipros for stable isotopic mass spectrum metaproteomics proteomics research

A fast and accurate fine-grained taxonomy-specific FDR assessment tool

Microbial-domain de novo peptide sequencing from tandem mass spectra

Sipros5, a proteomics tool designed for identifying and quantifying isotopically labeled proteins—especially 13C-15N-18O-2H-labeled—in complex microbial communities using scalable and modular high-performance computation.

Phylogeny-aware power analysis and sample-size estimation for microbiome community studies (metagenomic and metaproteomic)