Projects in Awesome Lists tagged with proteomics-data-analysis
A curated list of projects in awesome lists tagged with proteomics-data-analysis .
https://github.com/fgcz/prolfqua
Differential Expression Analysis tool box R lang package for omics data
differential-expression-analysis hypothesis-testing protein-quantification proteomics-data-analysis quality-control r-package rstats-package
Last synced: 29 Oct 2025
https://github.com/JoachimGoedhart/VolcaNoseR
Shiny app for making and annotating Volcano plots
dataviz genomic-data-analysis ggplot2 proteomics-data-analysis shiny shinyapp volcano
Last synced: 30 Jul 2025
https://github.com/mmasoud1/histojs
HistoJS: Web-Based Analytical Tool for Multiplexed Images. Limited Github Online Demo 👇
cell-cell-interaction cell-segmentation digital-slide-archive image-processing mibiscope multichannel multiplexed-imaging multiplexed-imaging-analysis ome-tiff phenotyping proteomics proteomics-data-analysis single-cell spatial-biology spatial-data-analysis whole-slide-imaging
Last synced: 15 Oct 2025
https://github.com/czbiohub-sf/grassp
GRaph-based Analysis of Subcellular/Spatial Proteomics
anndata proteomics-data-analysis scanpy spatial-proteomics subcellular-localization
Last synced: 10 Feb 2026
https://github.com/somalogic/somaplotr
A highly specialized suite of standardized plotting routines based on the "Grammar of Graphics" framework of mapping variables to aesthetics used in 'ggplot2'. Graphics types are biased towards visualizing SomaScan (proteomic) data.
dataviz ggplot2 proteomics proteomics-data-analysis r r-package somascan
Last synced: 06 Feb 2026
https://github.com/dev-ev/isobaric-inspection-jupyter
Inspecting the quality of isobaric labeling proteomic data in a Jupyter notebook. Data output from Proteome Discoverer.
data-quality data-visualization data-wrangling isobaric-labeling jupyterlab mass-spectrometry proteome-discoverer proteomics proteomics-data-analysis python quantitative-proteomics
Last synced: 04 Mar 2026
https://github.com/seerbio/seer-pas-sdk
Python SDK for Seer PAS
proteomics proteomics-data-analysis python-sdk
Last synced: 04 Feb 2026
https://github.com/pgarrett-scripps/proteincleaverstreamlitapp
Protein Cleaver is a versatile tool for protein analysis and digestion.
digestion fasta mass-spectrometry peptide peptide-identification peptide-sequences peptides protein protein-sequences proteomics proteomics-data-analysis streamlit streamlit-cloud
Last synced: 15 Oct 2025
https://github.com/dev-ev/julia-vs-python-ms-scripting
Performance of Julia and Python for reading and matching mass spectrometry data
benchmarking julia mass-spectrometry numpy performance-testing proteomics-data-analysis python
Last synced: 04 May 2026
https://github.com/jonathanto99/ms-proteomics-tools
The repository for proteomics tools developed by Brigham Young University's Fritz B. Burns cancer research mass spectrometry core facility
byu mass-spectrometry proteomics-data-analysis
Last synced: 02 May 2026
https://github.com/dev-ev/isobaric-correlations
Exploring correlations in an isobaric labeling mass spectrometry-based proteomic data set
correlation-matrix escherichia-coli isobaric-quantification pearson-correlation-coefficient proteomics proteomics-data-analysis tmt-data-analysis
Last synced: 24 Apr 2026
https://github.com/bmascat/lfq-proteomics-pipeline
All code, bash scrypts and pipelines used to analyse and visualise proteomic data from my experiments with my first Crispr KO model.
bioinformatics goterm over-representation-analysis proteomics proteomics-data-analysis
Last synced: 18 Mar 2025
https://github.com/baynec2/mspms
R package for the analysis of Multiplex Substrate Profiling by Mass Spectrometry for Proteases (MSP-MS) Data
protease proteomics proteomics-data-analysis
Last synced: 23 Feb 2026
https://github.com/sivkri/perseus-ms-proteomics-venn
Mass spectrometry Perseus Data analysis
data-analysis mass-spectrometry perseus proteomics proteomics-data proteomics-data-analysis proteomics-data-integration
Last synced: 14 Apr 2026
https://github.com/vaishnavpvarma/vaxijen-antigenicity-parser
Automated parser for VaxiJen output 🚀 A lightweight Perl tool to extract and tabulate antigenicity predictions from VaxiJen . Designed for bioinformatics, immunoinformatics, and reverse vaccinology workflows, this script helps researchers process large datasets into clean, ready-to-analyze tables.
antigenicity-prediction bioinformatics computational-biology excel-converter fasta immunoinformatics immunology peptide-analysis perl-script proteomics proteomics-data-analysis vaccine-development vaxijen
Last synced: 04 Sep 2025
https://github.com/shilohalleyne/bacterial-efflux-pump-paring-with-parser-combinators
A remake of my BSC research: https://github.com/ShilohAlleyne/Bacterial-Efflux-Pumps-Bioinformatics-Investigations
haskell parser-combinators proteomics-data-analysis
Last synced: 30 Mar 2025
https://github.com/maayanlab/genesetcart
GeneSetCart is an interactive web-based platform that enables investigators to gather gene sets from various sources; augment these sets with gene-gene co-expression correlations and protein-protein interactions; perform set operations on these sets such as union, consensus, and intersection; and visualize and analyze these gene sets.
biomedical-data-science biomedical-informatics geneset-enrichment geneset-enrichment-analysis genesets genomics proteomics proteomics-data-analysis transcriptomics
Last synced: 15 Mar 2025
https://github.com/mele0/ckd-patient-profiling
Reproducible pipeline for unsupervised proteomic clustering in chronic kidney disease using UMAP and Gaussian Mixture Models, with downstream Random Forest and LASSO feature selection, pathway enrichment, and survival analysis to define molecularly distinct CKD endotypes.
bash clustering deep-learning dimensionality-reduction hpc machine-learning pca precision-medicine proteomics-data-analysis python r survival-analysis ukbiobank umap
Last synced: 05 May 2026
https://github.com/holsam/comms
A command line tool for comparative analysis of proteomic data.
biological-data-analysis mass-spectrometry proteomics proteomics-data-analysis
Last synced: 11 May 2026
