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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
https://code.google.com/p/condr/
Software that implements a HMM Model to detect copy number variants in exome sequence data.
Proper citation: CONDEX (RRID:SCR_012109) Copy
http://sourceforge.net/projects/sat-assembler/
A targeted gene assembly software program which aims to recover gene families of particular interest to biologists.
Proper citation: SAT-Assembler (RRID:SCR_012108) Copy
https://code.google.com/p/proteocloud/
A Java-based proteomics cloud computing pipeline system for peptide and protein identifications.
Proper citation: ProteoCloud (RRID:SCR_012075) Copy
http://sourceforge.net/projects/fingerid/
A metabolite identification software using tandem mass spectrometry and kernel methods.
Proper citation: FingerID (RRID:SCR_012077) Copy
https://code.google.com/p/chibe/
An editing and visualization software tool for pathway models represented by the BioPAX format, using SBGN Process Description Language, based on Chisio.
Proper citation: ChiBE (RRID:SCR_012110) Copy
https://code.google.com/p/slidesort-bpr/
Software using a reference-free method for detecting clusters of breakpoints from the chromosomal rearrangements.
Proper citation: SlideSort-BPR (RRID:SCR_012079) Copy
http://sourceforge.net/projects/protrac/
A software which detects and analyses piRNA clusters based on quantifiable deviations from a hypothetical uniform distribution regarding the decisive piRNA cluster characteristics.
Proper citation: proTRAC (RRID:SCR_012078) Copy
https://code.google.com/p/moabs/
Software providing a complete, accurate and efficient solution for analysis of large scale base-resolution DNA methylation data, bisulfite sequencing or single molecule direct sequencing.
Proper citation: MOABS (RRID:SCR_012071) Copy
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
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