princelab
The Prince Laboratory: Mass spectrometry omics (proteomics, lipidomics, and metabolomics)
Brigham Young University, Provo, Utah
Pinned Repositories
gene_ontology
simple class for working with GO (gene ontology); also see Bio::GO classes in bioruby
katamari
mass spectrometry proteomics analysis pipeline based on KatamariDotei
KDER
A KDE implementation in ruby
lipid_classifier
Lipid classification tool
mspire
mass spectrometry proteomics in ruby
mspire-simulator
Options Builder
narray
Ruby/NArray : N-dimensional Numerical Array for Ruby
rubabel
Ruby interface to the OpenBabel ruby bindings similar to pybel
savgol
Implements Savitzky-Golay filters in ruby (and eventually in NMatrix)
xcalibur-sld
Reads Thermo SLD (sequence) files that contain the information about the sequence of mass spectrometry runs.
princelab's Repositories
princelab/mspire
mass spectrometry proteomics in ruby
princelab/savgol
Implements Savitzky-Golay filters in ruby (and eventually in NMatrix)
princelab/rubabel
Ruby interface to the OpenBabel ruby bindings similar to pybel
princelab/gene_ontology
simple class for working with GO (gene ontology); also see Bio::GO classes in bioruby
princelab/mspire-simulator
Options Builder
princelab/xcalibur-sld
Reads Thermo SLD (sequence) files that contain the information about the sequence of mass spectrometry runs.
princelab/lipid_classifier
Lipid classification tool
princelab/mspire-sequest
An mspire library for working with SEQUEST related data (.srf files, .sqt files, etc).
princelab/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.
princelab/metriculator
Performance metric tool for LCMS and MS experiments.
princelab/gnuplot-multiplot
enhances the gnuplot gem with multiplot capability
princelab/msplinter
fragments molecules
princelab/ms-ident
mspire library for dealing with identifications from mass spectrometry
princelab/mspire-centroider
centroid profile spectra
princelab/mspire-lipid
for working with mass spectrometry lipidomics data (right now shotgun style data)
princelab/pchip
Piecewise Cubic Hermite spline interpolation methods for ruby
princelab/diadem
Dynamic Isotope calculations
princelab/mascot-dat
A parser for Mascot DAT files
princelab/massifquant
Kalman tracker for binless quantification of chromatographic features in mass spectrometry proteomics
princelab/MetFrag
Match Predicted Fragments with Mass Spectra
princelab/mspire-envelope_extractor
Extract isotope envelopes for protein turnover studies
princelab/mspire-isotope
mspire library that can retrieve (from NIST) and yield element isotope information. Uses Neese biological ratios by default.
princelab/mspire-mascot-submit
Automates submission of searches to a mascot server
princelab/mspire-mass
mspire library holding constants for mass lookup
princelab/mspire-molecular_formula
mspire library to handle molecular formulas (including an optional charge state), complete with relevant chemical properties such as mass, m/z, and isotope distribution.
princelab/mspire-obo
Tools for working with mass spectrometry related ontologies (obo files).
princelab/peak_id_mapper
A pepxml and mzml feature mapping and extraction utility
princelab/ruby-emass
A pure ruby implementation of the Perttu Haimi's implementation of the Rockwood & Haimi 2006 JASMS "Efficient Calculation of Accurate Masses of Isotopic Peaks" method.
princelab/scripts
various scripts used by the princelab for data processing
princelab/sqoosh
Simple Quantitation Of Omics Slightly Handy