Nesvilab/EntrapBench

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3
Rank 3,963,521 (Top 79 %)
Language
Java
License
Apache License 2.0
Created about 1 year ago
Updated about 1 year ago

Nesvilab/EntrapBench

Nesvilab

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Generate entrapment database and calculate false discovery proportion (FDP)

FragPipe

A cross-platform proteomics data analysis suite

philosopher

PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering

MSFragger

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

MSBooster

MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring

IonQuant

A label free quantification tool.

PTM-Shepherd

A tool for summarizing open search results

TMT-Integrator

A tool integrates channel abundances from multiple TMT samples and exports a general report for downstream analysis.

PD-Nodes

The implementation of MSFragger and Philosopher (PeptideProphet) as Proteome Discoverer nodes

Crystal-C

Crystal-C: A computational tool for refinement of open search results

FragPipe-Analyst

An easy-to-use and interactive web application for FragPipe

FragPipeAnalystR

msconvert-scripts

Some shell scripts related to raw format conversion using msconvert

MSFragger-DIA-manuscript

Python and R scripts to generate the figures in the MSFragger-DIA paper

dia-umpire-gui

Simple one page java gui for DIA-Umpire

nesvilab.github.io

Nesvilab website

FragPipeTPP

Enables FragPipe Ouput from (TPP workflow) to be made compatible with TPP-R package