a-r-j/TB-Resources

List of online databases and resources for Mycobacterium Tuberculosis

Size: 10.7 KB - Last synced: 7 days ago - Pushed: about 5 years ago - Stars: 1 - Forks: 1

lgatto/MSnbase

Base Classes and Functions for Mass Spectrometry and Proteomics

Language: R - Size: 96.6 MB - Last synced: 6 days ago - Pushed: 7 days ago - Stars: 119 - Forks: 50

smith-chem-wisc/mzLib

Library for mass spectrometry projects

Language: C# - Size: 201 MB - Last synced: 12 days ago - Pushed: 14 days ago - Stars: 25 - Forks: 30

jajohnso29/jajohnso29

My professional repository of project and publication data files in computational biology and data science.

Size: 41 KB - Last synced: 20 days ago - Pushed: 21 days ago - Stars: 0 - Forks: 0

ursgal/ursgal

Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis

Language: Python - Size: 13.1 MB - Last synced: about 1 month ago - Pushed: 2 months ago - Stars: 41 - Forks: 32

RTKlab-BYU/Proteomic-Data-Manager

Proteomic Data Manager is a Web-based integrated plateform to combine data storage/backup, process and visualization of MS-based Proteomics data.

Language: Python - Size: 6.62 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 7 - Forks: 0

kevinkovalchik/RawTools

RawTools is an open-source and freely available package designed to perform scan data parsing and quantification, and quality control analysis of Thermo Orbitrap raw mass spectrometer files from data-dependent acquisition experiments.

Language: C# - Size: 5.36 MB - Last synced: 2 months ago - Pushed: 11 months ago - Stars: 57 - Forks: 21

RTKlab-BYU/Raw_File_Uploader

Tool to automatically upload result file to Proteomics Data Manager (mainly for MS based proteomics)

Language: C# - Size: 388 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 2 - Forks: 0

Cajun-data/nanoSPLITS

Github repository for nanoSPLITS manuscript data and R scripts

Language: HTML - Size: 377 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 3 - Forks: 0

Keniajin/protGear

protGear is a package for protein microarray data processing just before the main analysis.

Language: R - Size: 41.9 MB - Last synced: 12 days ago - Pushed: over 1 year ago - Stars: 1 - Forks: 1

lgatto/pRoloc

A unifying bioinformatics framework for organelle proteomics

Language: R - Size: 210 MB - Last synced: 25 days ago - Pushed: about 2 months ago - Stars: 14 - Forks: 12

dmpio/Davidson_et_al_2020_Kac_PRX

Repository for proteomic data analysis used in the publication "Extreme Acetylation of the Cardiac Mitochondrial Proteome Does Not Promote Heart Failure."

Language: Jupyter Notebook - Size: 76.4 MB - Last synced: 6 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

dmpio/Williams_et_al_2019_Kac_PRX

Repository for proteomic data analysis used in the publication "Disruption of acetyl-lysine turnover in muscle mitochondria promotes insulin resistance and redox stress without overt respiratory dysfunction."

Language: Jupyter Notebook - Size: 30.8 MB - Last synced: 6 months ago - Pushed: almost 4 years ago - Stars: 0 - Forks: 0

lgatto/RforProteomics

Using R and Bioconductor packages for the analysis and comprehension of proteomics data.

Language: TeX - Size: 265 MB - Last synced: 7 months ago - Pushed: 12 months ago - Stars: 78 - Forks: 33

pwilmart/TMT_analysis_examples

Examples of TMT data analyses using R. Links to notebooks and repositories. Also a few spectral counting analyses.

Size: 185 MB - Last synced: 7 months ago - Pushed: almost 2 years ago - Stars: 20 - Forks: 4

cornelliusyudhawijaya/Master_degree_project

Exploring the growth-dependent proteome of Tuwongella immobilis

Language: R - Size: 3.91 KB - Last synced: 7 months ago - Pushed: almost 6 years ago - Stars: 0 - Forks: 0

dev-ev/qc-script-PD24

QC scripts for LC-MS proteomic equipment based on Proteome Discoverer 2.4 output

Language: Python - Size: 680 KB - Last synced: 7 months ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

dev-ev/isobaric-prot-wf-r

Simple workflows for the isobaric-labeling proteomic data from Proteome Discoverer with ANOVA, t-testing, DEqMS/limma and annotation via fgsea

Language: R - Size: 959 KB - Last synced: 7 months ago - Pushed: almost 2 years ago - Stars: 4 - Forks: 0

chhh/deltamass

DeltaMass: view and interrogate open proteomics search data

Language: Java - Size: 1.39 MB - Last synced: 7 months ago - Pushed: about 3 years ago - Stars: 6 - Forks: 3

cox-labs/CoxLab_Bug_Reporting

MaxQuant and Perseus Bug Reporting

Size: 9.77 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 5 - Forks: 1

proteomicsyates/ProteinClusterQuant

Protein Cluster Quant is a Java software for the analysis of complex proteomics samples (quantitative or not). It helps to reduce the redundancy of the peptide-to-protein relationship and to visualize the results in a bipartite network (Cytoscape).

Language: Python - Size: 319 MB - Last synced: about 1 month ago - Pushed: 9 months ago - Stars: 5 - Forks: 3

smdb21/java-miape-api

Java API for the extraction and management of MIAPE documents from standard proteomics data files

Language: Java - Size: 14 MB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

pegerto/ASDParser

ASDParser

Language: Python - Size: 99.6 KB - Last synced: 27 days ago - Pushed: about 2 months ago - Stars: 1 - Forks: 0

proteomicsunitcrg/rawocop

Smart, light, easy and robust Thermo RAW files backup program

Language: Visual Basic .NET - Size: 78.1 KB - Last synced: 9 months ago - Pushed: over 1 year ago - Stars: 2 - Forks: 0

br3ndonland/R-proteomics-Nrf1

Molecular biology experiments, mass spectrometry-based proteomics, and reproducible data analysis in R

Language: Rich Text Format - Size: 102 MB - Last synced: 3 months ago - Pushed: almost 4 years ago - Stars: 5 - Forks: 0

sivkri/Perseus-MS-Proteomics-Venn

Mass spectrometry Perseus Data analysis

Language: Jupyter Notebook - Size: 330 KB - Last synced: 11 months ago - Pushed: 11 months ago - Stars: 0 - Forks: 0

HUPO-PSI/proxi-schemas

ProXI: Schema definitions for the Proteomics eXpression Interface

Language: JavaScript - Size: 4.16 MB - Last synced: about 1 month ago - Pushed: about 1 year ago - Stars: 3 - Forks: 3

julianstanley/ProteinFeatures

Feature extraction from .pdb files

Language: Jupyter Notebook - Size: 47.1 MB - Last synced: 9 months ago - Pushed: over 1 year ago - Stars: 4 - Forks: 1

elixir-cloud-proteomics-workflows/elixir_proteomics_QC

Language: Nextflow - Size: 36.3 MB - Last synced: 9 months ago - Pushed: almost 4 years ago - Stars: 0 - Forks: 2

smdb21/PACOM

PACOM (Proteomics Assay COMparator) is a Java stand alone tool for visualize and compare large proteomics datasets

Language: Java - Size: 49.5 MB - Last synced: 7 months ago - Pushed: about 2 years ago - Stars: 5 - Forks: 2

pwilmart/IRS_normalization

An exploration of internal reference scaling (IRS) normalization in isobaric tagging proteomics experiments.

Language: Jupyter Notebook - Size: 32.1 MB - Last synced: about 1 year ago - Pushed: almost 5 years ago - Stars: 12 - Forks: 9

MRCToxBioinformatics/Proteomics.analysis.data

Data for proteomics data analysis course

Language: R - Size: 34.3 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

quantixed/VolcanoPlot

Making volcano plots from proteomic data in IgorPro

Language: IGOR Pro - Size: 2.54 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

proteomicsyates/utilities

General Java util classes used across different projects

Language: Java - Size: 6.74 MB - Last synced: about 1 month ago - Pushed: 9 months ago - Stars: 0 - Forks: 1

PhilipBerg/pair

Proteomics analysis in R

Language: R - Size: 1.48 MB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

proteomicsyates/QuantParser

Parser for quantitative data from files created by Census software.

Language: Java - Size: 796 KB - Last synced: about 1 month ago - Pushed: 11 months ago - Stars: 0 - Forks: 0

davwong47/Circadian-proteomics

Custom analysis of in vitro circadian proteomics and phosphoproteomics using multiple sets of 10plex TMT with two genotypes

Language: R - Size: 76.1 MB - Last synced: 2 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 2

proteomicsyates/CensusTMT2MSstatsTMT

Converter from Census TMT output file to the input of MSstatsTMT

Language: Java - Size: 247 KB - Last synced: about 1 month ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 1

proteomicsyates/dbIndex

Indexing of FASTA files for searching peptide masses and sequences

Language: Java - Size: 191 KB - Last synced: about 1 month ago - Pushed: 12 months ago - Stars: 0 - Forks: 0

proteomicsyates/DTASelect2PepXML

Converter from DTASelect to pepXML formats

Language: Java - Size: 37.1 KB - Last synced: about 1 month ago - Pushed: over 5 years ago - Stars: 0 - Forks: 0