PMC:5137214 / 16139-17577 JSONTXT

{"target":"http://pubannotation.org/docs/sourcedb/PMC/sourceid/5137214","sourcedb":"PMC","sourceid":"5137214","source_url":"https://www.ncbi.nlm.nih.gov/pmc/5137214","text":"Table 1 Selected open access software tools in proteomics\nOpen access tools Language/framework License Publication Website\nDatabase search engine (untargeted proteomics)\nComet*,† C++ Apache 2.0 [93] [94]\nMS-GF+*,† Java Custom/Academic [31] [95]\nMSAmanda† C#/Mono Custom/Academic [96] [97]\nProLuCID*,† Java Custom/Academic [26] [98]\nX!Tandem*,† C++ OSI Artistic [99] [100]\nTargeted proteomics and/or data-independent acquisition\nSkyline* C# Apache 2.0 [101] [102]\nOpenSWATH*,† C++ BSD 3-Clause [103] [104]\nProtein inference and/or search post-processing\nPercolator*,† C++ Apache 2.0 [34] [105]\nProteinProphet*,† C++ GNU LGPLv2 [106] [107]\nProteinInferencer† Java Custom/Academic [35] [98]\nProtein quantification\nMaxQuant .NET Custom/Academic [108] [109]\nCensus† Java Custom/Academic [110] [98]\nPLGEM*,† R GNU GPLv2 [111] [112]\nQPROT*,† C GNU GPLv3 [37] [113]\nPipelines and toolkits\nPerseus .NET Custom/Academic [114] [115]\nCrux* C++ Apache 2.0 [116] [105]\nOpenMS* C++ BSD 3-Clause [117] [118]\nTPP* C++ GNU LGPLv2 [119] [120]\nData access and reuse\nPeptideShaker* Java Apache 2.0 [121] [122]\nPRIDE inspector* Java Apache 2.0 [123] [124]\nProteomics software tools that provide open access to users. 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