princelab/GuiMsConverter

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Language
Ruby
License
MIT License
Created over 13 years ago
Updated over 13 years ago

princelab/GuiMsConverter

princelab

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This is a Ruby/Shoes based GUI for enabling those who dislike CLI programs to easily convert their RAW files to formats conducive to downstream processing.

savgol

Implements Savitzky-Golay filters in ruby (and eventually in NMatrix)

mspire

mass spectrometry proteomics in ruby

rubabel

Ruby interface to the OpenBabel ruby bindings similar to pybel

gene_ontology

simple class for working with GO (gene ontology); also see Bio::GO classes in bioruby

mspire-simulator

Options Builder

lipid_classifier

Lipid classification tool

katamari

mass spectrometry proteomics analysis pipeline based on KatamariDotei

mspire-sequest

An mspire library for working with SEQUEST related data (.srf files, .sqt files, etc).

KDER

A KDE implementation in ruby

metriculator

Performance metric tool for LCMS and MS experiments.

xcalibur-sld

Reads Thermo SLD (sequence) files that contain the information about the sequence of mass spectrometry runs.

Ruby-KDE

Code required for ruby implementation of KDE and some stats (t-tests)

msplinter

fragments molecules

emass

A copy of Perttu Haimi's implementation of the Rockwood & Haimi 2006 JASMS "Efficient Calculation of Accurate Masses of Isotopic Peaks" method. Includes some fixes which are tracked via version control.

gnuplot-multiplot

enhances the gnuplot gem with multiplot capability

pocketbook

Mass Spec Proteomics database and search engine.

pchip

Piecewise Cubic Hermite spline interpolation methods for ruby

specdive

Data viewing interface for KatamariDotei in Rails

KatamariDotei

An MS proteomic analysis pipeline developed under Prince Labs (Still in development)

ms-quant-validator-misc

For validating various ms quantitation engines (fairly custom)

mspire-centroider

centroid profile spectra

spectral_summing

isoelectric_calc

Calculates pI values for given protein sequences

ms-archiver

A package to archive and analyze MS data over both Windows and Linux machines and archive all the files to both a database and a network location.

mspire-lipid

for working with mass spectrometry lipidomics data (right now shotgun style data)

ms-testdata

Stores larger data files for commonly used file formats

ms-quant

quantitation for mass spectrometry proteomics experiments. This project is not associated with MSQuant(http://msquant.sourceforge.net/), even though the goals are similar.

ms-ident

mspire library for dealing with identifications from mass spectrometry

protein_tag_annotater

This produces an annotated markdown file for visualizing the changes caused by tagging agent.

double_disulfide_searcher

ms-qspecprep

This is a package that can prep files completely for a statistical comparison by the QSpec package