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vidjil
vidjil
Commit a7aaee81 authored by Mathieu Giraud's avatar Mathieu Giraud
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vidjil: release 2016.09

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doc/CHANGELOG
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This changelog concerns the algorithmic part (C++) of Vidjil.
2016-09-xx The Vidjil Team
2016-09-30 The Vidjil Team
* New default trim option (-t 0) for germlines, leading to better results on some special recombinations (vidjil.cpp)
* More flexible option to keep sequences of intereset (-W), accepting sequences of any size (core/windows.cpp)
* Better generation of consensus sequences, marking ambiguous positions with Ns (core/representative.cpp)
* Better recognition of standard recombinations by lowering incomplete germline attractiveness (core/segment.cpp)
* Better TRD locus analysis, including Dd-Dd-Jd recombinations (data/germlines.data)
* Better TRD locus analysis, including some Dd-Dd-Jd recombinations (data/germlines.data)
* Reduced unused similarity section of .json file output (vidjil.cpp)
* New json output with -c segment (vidjil.cpp)
* Updated help (doc/algo.org)
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