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    59 repositories

    • savgol

      Public
      Implements Savitzky-Golay filters in ruby (and eventually in NMatrix)
      Ruby
      •
      Other
      •5•11•0•1•Updated Jun 20, 2018Jun 20, 2018

    • gene_ontology

      Public
      simple class for working with GO (gene ontology); also see Bio::GO classes in bioruby
      Ruby
      •
      Other
      •3•6•0•0•Updated Dec 4, 2017Dec 4, 2017

    • rubabel

      Public
      Ruby interface to the OpenBabel ruby bindings similar to pybel
      Ruby
      •
      Other
      •6•9•1•0•Updated Aug 24, 2015Aug 24, 2015

    • lipid_classifier

      Public
      Lipid classification tool
      Ruby
      •
      GNU Affero General Public License v3.0
      •2•5•1•0•Updated Sep 4, 2014Sep 4, 2014

    • mspire-envelope_extractor

      Public
      Extract isotope envelopes for protein turnover studies
      Ruby
      •
      Other
      •0•0•0•0•Updated Sep 2, 2014Sep 2, 2014

    • mspire-centroider

      Public
      centroid profile spectra
      Ruby
      •0•1•0•0•Updated Sep 2, 2014Sep 2, 2014

    • ruby-emass

      Public
      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.
      Ruby
      •
      Other
      •0•0•0•0•Updated Aug 23, 2014Aug 23, 2014

    • mspire-lipid

      Public
      for working with mass spectrometry lipidomics data (right now shotgun style data)
      Ruby
      •
      Other
      •0•1•0•0•Updated Aug 14, 2014Aug 14, 2014

    • mspire-molecular_formula

      Public
      mspire library to handle molecular formulas (including an optional charge state), complete with relevant chemical properties such as mass, m/z, and isotope distribution.
      Ruby
      •
      Other
      •0•0•0•0•Updated Aug 3, 2014Aug 3, 2014

    • mspire

      Public
      mass spectrometry proteomics in ruby
      Ruby
      •
      Other
      •4•11•2•0•Updated Aug 3, 2014Aug 3, 2014

    • mspire-mass

      Public
      mspire library holding constants for mass lookup
      Ruby
      •
      Other
      •0•0•0•0•Updated Aug 1, 2014Aug 1, 2014

    • mspire-isotope

      Public
      mspire library that can retrieve (from NIST) and yield element isotope information. Uses Neese biological ratios by default.
      Ruby
      •
      Other
      •0•0•0•0•Updated Aug 1, 2014Aug 1, 2014

    • massifquant

      Public
      Kalman tracker for binless quantification of chromatographic features in mass spectrometry proteomics
      Ruby
      •
      Other
      •0•0•0•0•Updated Jul 31, 2014Jul 31, 2014

    • scripts

      Public
      various scripts used by the princelab for data processing
      Ruby
      •2•0•0•0•Updated Jul 25, 2014Jul 25, 2014

    • emass

      Public
      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.
      C++
      •
      Other
      •0•3•0•0•Updated Jul 18, 2014Jul 18, 2014

    • msplinter

      Public
      fragments molecules
      Ruby
      •
      Other
      •3•2•1•0•Updated Jun 25, 2014Jun 25, 2014

    • mspire-obo

      Public
      Tools for working with mass spectrometry related ontologies (obo files).
      Ruby
      •
      Other
      •0•0•0•0•Updated Jun 10, 2014Jun 10, 2014

    • sqoosh

      Public
      Simple Quantitation Of Omics Slightly Handy
      Ruby
      •
      Other
      •0•0•0•0•Updated May 7, 2014May 7, 2014

    • gnuplot-multiplot

      Public
      enhances the gnuplot gem with multiplot capability
      Ruby
      •
      Other
      •1•2•0•0•Updated May 6, 2014May 6, 2014

    • peak_id_mapper

      Public
      A pepxml and mzml feature mapping and extraction utility
      Ruby
      •
      GNU General Public License v2.0
      •0•0•0•0•Updated Mar 5, 2014Mar 5, 2014

    • diadem

      Public
      Dynamic Isotope calculations
      Ruby
      •
      Other
      •0•0•0•0•Updated Jan 3, 2014Jan 3, 2014

    • mspire-sequest

      Public
      An mspire library for working with SEQUEST related data (.srf files, .sqt files, etc).
      Ruby
      •
      Other
      •0•4•1•0•Updated Oct 22, 2013Oct 22, 2013

    • mspire-mascot-submit

      Public
      Automates submission of searches to a mascot server
      Ruby
      •
      Other
      •0•0•0•0•Updated Oct 22, 2013Oct 22, 2013

    • ms-ident

      Public
      mspire library for dealing with identifications from mass spectrometry
      Ruby
      •
      Other
      •0•1•0•0•Updated Oct 22, 2013Oct 22, 2013

    • mascot-dat

      Public
      A parser for Mascot DAT files
      Ruby
      •
      MIT License
      •3•0•0•0•Updated Oct 22, 2013Oct 22, 2013

    • metriculator

      Public
      Performance metric tool for LCMS and MS experiments.
      Ruby
      •
      MIT License
      •1•3•4•0•Updated Sep 12, 2013Sep 12, 2013

    • mspire-simulator

      Public
      Options Builder
      Ruby
      •
      Other
      •1•6•1•0•Updated Aug 30, 2013Aug 30, 2013

    • xcalibur-sld

      Public
      Reads Thermo SLD (sequence) files that contain the information about the sequence of mass spectrometry runs.
      Ruby
      •
      Other
      •4•6•0•0•Updated Jul 26, 2013Jul 26, 2013

    • MetFrag

      Public
      Match Predicted Fragments with Mass Spectra
      Java
      •6•0•0•0•Updated Jul 3, 2013Jul 3, 2013

    • pchip

      Public
      Piecewise Cubic Hermite spline interpolation methods for ruby
      Ruby
      •
      Other
      •0•1•0•0•Updated Jul 2, 2013Jul 2, 2013