proteogenomics
There are 31 repositories under proteogenomics topic.
wenbostar/PDV
PDV: an integrative proteomics data viewer
nf-core/quantms
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
smith-chem-wisc/mzLib
Library for mass spectrometry projects
bigbio/quantms
Quantitative mass spectrometry workflow.
bzhanglab/neoflow
NeoFlow: a proteogenomics pipeline for neoantigen discovery
bigbio/py-pgatk
Python tools for proteogenomics analysis toolkit
bzhanglab/PepQuery
PepQuery: a targeted peptide search engine
smith-chem-wisc/Spritz
Software for RNA-Seq analysis to create sample-specific proteoform databases from RNA-Seq data
wenbostar/Customprodbj
Customized protein database construction
wenbostar/PGA
PGA: a tool for ProteoGenomics Analysis
bigbio/pgatk
PGATK: ProteoGenomics Analysis ToolKit
EuBIC/ReproducibleMSGuidelines
This project aims at defining a set of guidelines for reproducible mass spectrometry-based experiments.
linas/biome-distribution
Research into statistical distributions of genomes, proteomes and reactomes
nf-core/pgdb
The ProteoGenomics database generation workflow creates different protein databases for ProteoGenomics data analysis.
ProGenNo/ProHap
Proteogenomics database-generation tool for protein haplotypes and variants
uclahs-cds/package-moPepGen
Multi-Omics Peptide Generator
AstraBert/saccharomyces-pythia
Saccharomyces cerevisiae information, gene calling and ORF identification assistant
brianrisk/Peppy
6-frame proteogenomic peptide-spectrum match identification engine
bigbio/pgdb
ProteomeGenomics Database Creation - Nextflow Pipeline
abiswas97/DeNoPro
Denovo Proteogeomics pipeline to identify clinically relevent novel variants from RNAseq and Proteomics data.
anuragraj/ProteoLib
Library for Proteomics research literatures, tools and databases.
bigbio/pgatk-io
High performance io library for proteogenomics
bigbio/pgt-pangenome
Protegenomics analysis based on Pangenome references
bigbio/quantms-utils
A python library with scripts and helpers classes for quantms workflow
chinmayaNK22/Proteogenomic-Pipeline
Python packages for easy execution of proteogenomic workflow
YueAndyQi/lncRNA_immunopeptidome_Scripts
Scripts for lncRNA Project is a novel mass spectrometry-based peptide sequencing pipeline of the identification of LncRNA-derived immunopeptidome.
anuragraj/PgxSAVy
A tool for quality control and annotation of variant peptides after FDR in proteogenomics
beherasan/ProteoGenomics
Proteomic evidences can improve the existing genome annotation by finding novel coding regions or genome reannotations. These scripts can perform such tasks.
CPL-SeongminCheon/Trypsin_LysC_InSilico_Digestion
In Silico Trypsin/Lys-C Clevage Site Prediction
npinter/ProteoGenDB
ProteoGenDB: A Fast Proteogenomic Pipeline for Identifying Sequence Variants in Proteomics Data
srithegreat/codephoenix
My codes for proteomics, genomics and proteogenomics