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http://sourceforge.net/projects/netmode/
Fast motif detection algorithm for subgraph size no more than 6.
Proper citation: NetMODE (RRID:SCR_012085) Copy
http://www.bioinf.jku.at/software/fabia/fabia.html
A model-based technique for biclustering that is clustering rows and columns simultaneously.
Proper citation: FABIA (RRID:SCR_012002) Copy
http://www.aphl.org/Pages/default.aspx
Works to strengthen laboratories serving the public''s health in the US and globally.
Proper citation: APHL (RRID:SCR_012001) Copy
https://code.google.com/p/spinal/
Algorithm for the problem of globally aligning a pair of protein-protein interaction (PPI) networks.
Proper citation: SPINAL (RRID:SCR_012080) Copy
http://sketchel.sourceforge.net/
An interactive chemical molecule sketching tool, and molecular spreadsheet data entry application.
Proper citation: SketchEl (RRID:SCR_012082) Copy
http://sourceforge.net/projects/hopemap/
A connected-components based fast algorithm for network alignment.
Proper citation: HopeMap (RRID:SCR_012081) Copy
http://sourceforge.net/projects/mcdl/
A small Java molecular viewer/editor for chemical structures, stored in Modular Chemical Descriptor Language linear notation.
Proper citation: MCDL (RRID:SCR_012084) Copy
A software that facilitates and improves the design of chemical combinatorial libraries.
Proper citation: GLARE (RRID:SCR_012083) Copy
A registry which provides links and reviews for material resources such as reagents, equipment, digital tools, and providers, as well as the companies that sell them. Users can search for specific materials or search by vendor, product, or service type.
Proper citation: 1DegreeBio (RRID:SCR_011994) Copy
Software that allows fast and user-friendly verification of Mascot result files, as well as data quantification using isotopic labeling methods (SILAC/ICAT) or label free approaches (spectral counting, MS signal comparison).
Proper citation: MFPaQ (RRID:SCR_012049) Copy
https://code.google.com/p/thermo-msf-parser/
A Java library to parse the msf files that constitute the output of Proteome Discoverer.
Proper citation: thermo-msf-parser (RRID:SCR_012053) Copy
https://code.google.com/p/searchgui/
Software providing a user-friendly, lightweight and open-source graphical user interface for configuring and running the freely available OMSSA and X!Tandem search engines simultaneously.
Proper citation: SearchGUI (RRID:SCR_012054) Copy
http://proteowizard.sourceforge.net/
Software that enables rapid tool creation by providing a robust, pluggable development framework that simplifies and unifies data file access, and performs standard proteomics and LCMS dataset computations.
Proper citation: ProteoWizard (RRID:SCR_012056) Copy
http://sourceforge.net/projects/adtex/
A software tool for copy number variation (CNV) detection for whole-exome data from paired tumour/matched normal samples.
Proper citation: ADTEx (RRID:SCR_012059) Copy
http://sourceforge.net/projects/multiplierz/
An open-source Python-based environment that provides a scriptable framework for efficient access to manufacturers'' proprietary data files via mzAPI.
Proper citation: multiplierz (RRID:SCR_012058) Copy
http://sourceforge.net/projects/te-locate/
A software tool to locate all copies of sequences in a reference sequence using read-pairs.
Proper citation: TE-locate (RRID:SCR_012063) Copy
https://code.google.com/p/my-project-bpredictor/
A software tool to predict the conformational epitopes from 3D structures.
Proper citation: Bpredictor (RRID:SCR_012065) Copy
http://sourceforge.net/projects/laitor/
A text mining software developed to find co-occurrence of biological entities (gene/protein terms) together with biointeractions and concepts term from customized dictionaries.
Proper citation: LAITOR (RRID:SCR_012101) Copy
http://matnmr.sourceforge.net/
A highly flexible software toolbox for processing 1D and 2D NMR and EPR spectra under MATLAB, creating high-quality 1D, 2D or 3D plots from the spectra and printing them in every type of format that is supported by MATLAB.
Proper citation: MatNMR (RRID:SCR_012060) Copy
http://www.computationalbioenergy.org/meta-storms.html
Optimized GPU-based software to efficiently measure the quantitative phylogenetic similarity among massive amount of microbial community samples.
Proper citation: GPU-Meta-Storms (RRID:SCR_012029) Copy
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