Commit ea0471a4 authored by Mathieu Giraud's avatar Mathieu Giraud

vidjil: release 2015.12

parent 16c10f6c
This changelog concerns the algorithmic part (C++) of Vidjil.
2015-12-xx The Vidjil Team
2015-12-22 The Vidjil Team
* Better KmerSegmenter, rejecting reads with large alterning V/J zones (core/segment.cpp)
* Better unsegmentation causes, 'UNSEG only V/J' needs significant V/J fragments (core/segment.cpp)
* Renamed unsegmentation messages to "only V/5'" and "only J/3'" to avoid confusion (core/segment.h)
* Faster FineSegmenter (~35%), computing roughly half of the dynamic programming matrix (core/segment.cpp)
* More flexible handling of badly formatted .fastq files (core/fasta.cpp)
* New filtering/debug option (-uu), sort unsegmented reads (core/windowExtractor.cpp)
* Streamlined json output, removing short codes (vidjil.cpp, core/segment.cpp)
* Updated and refactored help (doc/algo.org)
* Updated unit and functional tests
* Bugs closed (build process, -X with large numbers, -x/-X combined with -c segment)
* Bugs closed (build process, -X with large numbers, -x/-X combined with -c segment, stdout messages)
2015-10-08 The Vidjil Team
* Bug closed (V(D)J assignation when V/D/J segments are close on the negative strand) (core/segment.cpp)
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