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Absolute quantification package based on MSsstats output and Quantms
The proteomics quantification format, extending mzTab for large scale datasets.
The Proteomics Experimental Design file format: Standard for experimental design annotation
Quantitative mass spectrometry workflow.
Mad decoy is a decoy simulation tool to assess large-scale merge of q-values.
A library for QC report based on MultiQC framework
A repository to convert SDRF proteomics files into pipelines config files
High performance io library for proteogenomics
Web page storing all the datasets renalyzed with quantms
A Deep LEArning-based Mass Spectra Embedder for spectral similarity scoring
Python tools for proteogenomics analysis toolkit
OpenMS MSRescore tool, integration tool between MS2Rescore and OpenMS
Python library to handle mzTab files
Development for python driven QC calculation (QCCalculator)
Proteomics searching so fast it feels like magic
JAVA-based implementation of LuciPHOr that can process any variable PTM.
📚 🔬 PIA - Protein Inference Algorithms
A command-line tool that provide functionalities to validate files that can be submitted to PRIDE
Spark package to perform downstream analysis of big data proteomics
Version of jmzTab library
ProteomeGenomics Database Creation - Nextflow Pipeline
java library to validate SDRF file formats
Library to store ms information in elastic search.
MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence database.
R package for protemics downstream a analysis
PROMA: PROteomics Metadata Annotator
Repository of Nextflow+BioContainers workflows