nesvilab Goto Github PK
Name: Nesvilab
Type: Organization
Bio: Alexey Nesvizhskii's proteome bioinformatics group.
Location: Ann Arbor, MI
Blog: http://www.nesvilab.org/
Name: Nesvilab
Type: Organization
Bio: Alexey Nesvizhskii's proteome bioinformatics group.
Location: Ann Arbor, MI
Blog: http://www.nesvilab.org/
Java implementation of the Aho-Corasick algorithm for efficient string matching
Deep learning framework for proteomics
Mass spectrometry data visualization
A shell script to clean the Storage. Internal use only. DISCLAIMER: not responsible for loss of data.
Crystal-C: A computational tool for refinement of open search results
DeltaMass: view and interrogate open proteomics search data
Computational analysis for mass spectrometry-based proteomics data
Simple one page java gui for DIA-Umpire
DIALib-QC, an assessment tool for the systematic evaluation of spectral assay libraries to improve the data independent acquisition analysis.
A diaPASEF spectrum-centric analysis tool
EasyPQP: Simple library generation for OpenSWATH
Generate entrapment database and calculate false discovery proportion (FDP)
A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
An easy-to-use and interactive web application for FragPipe
A forked PDV for FragPipe
Standalone script to add FPOP/oxidative modifications column to FragPipe psm tables
Enables FragPipe Ouput from (TPP workflow) to be made compatible with TPP-R package
Scripts for data processing and manuscript figures
A label free quantification tool.
DIA-Umpire based pipeline for generation of spectral libraries for targeted analysis of DIA data.
Query and list all projects from PRIDE
JAVA-based implementation of LuciPHOr that can process any variable PTM.
MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring
Some shell scripts related to Thermo Fisher raw format conversion using msconvert
Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
Python and R scripts to generate the figures in the MSFragger-DIA manuscript
MS File ToolBox - tools for parsing some mass-spectrometry related file formats (mzML, mzXML, pep.xml, prot.xml, etc.)
Nesvilab website
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