Projects in Awesome Lists by kevinkovalchik

https://github.com/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.

csharp-code mass-spectrometry-data orbitrap-ms proteomics-data

Last synced: 12 Nov 2024

https://github.com/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.

csharp-code mass-spectrometry-data orbitrap-ms proteomics-data

Last synced: 12 Oct 2024

https://github.com/kevinkovalchik/upsetplotly

A Python package for creating UpSet plots using the Plotly framework

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/pynetmhcpan

A simple tool for using NetMHCpan and NetMHCIIpan using multiple CPUs in a Python environment.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/realtimeorbiwiz

An application for testing access to Orbitrap RAW files during acquisition.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/proteotools

A simple Python package which lets you programmatically run a few proteomics search engines (Comet, X! Tandem, MS-GF+) and use compiled Trans-Proteomic Pipeline (TPP) binaries without needing to compile the entire pipeline.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/plotly-logo

A Python library for making amino acid sequence logos using the Plotly framework.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/tpp-container-definitions

Some (hopefully) useful definition files for builing the Trans Proteomic Pipeline inside a container.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/unspecific-decoy-generator

A tool for generating decoy proteins sequences for use with mass pectrometry database searches, specifically intended for unspecific digest searches.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/chopper

A simple tool for chopping up FASTA files.

Last synced: 06 Nov 2024

https://github.com/kevinkovalchik/x-tandem-for-centos

A verbatim clone of X! Tandem, version Alanine, but with release builds compiled in CentOS 7.

Last synced: 06 Nov 2024