Zhang Lab 's repositories
webgestaltpy
Python package for WebGestalt
WebGestaltR
R package for WebGestalt
clinicalomicsdbR
R package for interfacing with ClinicalOmicsDB
webgestalt_rust
Rust implementation of WebGestalt
nf-docker
docker files for pipeline steps
CoPheeMap
Co-regulation map of phosphosites
DeepRescore
DeepRescore: rescore PSMs leveraging deep learning-derived peptide features
deep_learning_in_proteomics
A list of tools on proteomics using deep learning
bzhanglab.github.io
Zhang Lab
DeepRescore2
DeepRescore2: deep learning prediction boosts phosphoproteomics-based discoveries through improved phosphopeptide identification
SEPepQuant
SEPepQuant: a graph theory-based approach enables comprehensive protein isoform characterization in shotgun proteomics
py-pgatk
Python tools for proteogenomics analysis toolkit
LinkedOmicsKB_manuscript
Core scripts for calculating associations
GENCODE_V42_reference
Reference preparation for proteogenomics data processing and downstream analysis
nf-rnaseq
rnaseq pipeline with nextflow