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MetaMorpheus
PublicProteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilitiesmzLib
PublicLibrary for mass spectrometry projectsFlashLFQ
PublicUltra-fast label-free quantification algorithm for mass-spectrometry proteomicsJenkins-MetaMorpheus
PublicSpritz
PublicSoftware for RNA-Seq analysis to create sample-specific proteoform databases from RNA-Seq dataMetaPAL
PublicProteaseGuru
PublicProteoformSuite
PublicConstruction, quantification, and visualization of proteoform familiesMetaNetwork
PublicSnpEff
PublicThis is a customized version of SnpEff used in Spritz (https://github.com/smith-chem-wisc/Spritz), which outputs a protein FASTA and XML files that can be used in MS proteomic search software.RawFileReader
PublicmzLib-rest
PublicAppleTurnover
PublicLncRNA-Snakemake
PublicProteoformExplorer
PublicProteoformClassifier
Publicpsi-mod-CV
PublicMetaDrive
PublicLearning-CSharp
PublicProteoformSuiteVignettes
PublicProteogenomics
PublicThermoRawFileParser
PublicNeo
PublicBio.VCF
PublicStefanPaper
PublicDeconvolutionAutoIT
Publicgptmd
PublicPrivateNeo
PublicOLD. SEE https://github.com/zrolfs/MetaMorpheus/tree/Neo-Fusion for current code. Downstream analysis for MetaMorpheus to identify novel spliced peptides