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.

A Ruby on Rails application for proteomics data analysis

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.

gNOMO2 allows integrated multi-omics analyses of microbiomes

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

Unipept command line interface

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

Peptide-centric functional enrichment tool

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

tools collection of Sipros for stable isotopic mass spectrum meta proteomic research

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

This repository holds the code and notes during the use of Casanovo as part of my Research Project, as well as links to resources used as part of the Metaproteomic Analysis of my samples.

🪆🦖 A snakemake wrapper around Nesvilab's FragPipe-CLI. In a perfect world, this pipeline was based on Sage.