- 07 Jul, 2014 1 commit
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Mikaël Salson authored
While CountKmerAffectAnalyser is more flexible, the heuristic implemented in KmerAffectAnalyser is more efficient, that's why we use it in the KmerSegmenter
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- 16 May, 2014 1 commit
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Mathieu Giraud authored
The function actually checks if there is a segmentation, including the main Vend/Jstart computation.
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- 15 Apr, 2014 2 commits
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Mikaël Salson authored
We update accordingly the tests to see if we're lacking V or J. In some very specific cases we may have some V and some J, but still not be able to find a maximum. We put the cause of unsegmentation to UNSEG_TOO_FEW_ZERO which may be misleading but somehow represents the reality (we have zero valuable information)
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Mikaël Salson authored
Positions are now correct from the beginning, since we do not allow an overlap in CountKmerAffectAnalyser. So we don't need to modify them slightly.
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- 14 Apr, 2014 1 commit
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Mikaël Salson authored
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- 27 Mar, 2014 2 commits
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Mathieu Giraud authored
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Mathieu Giraud authored
'removeChevauchement' and possibly other infos
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- 20 Feb, 2014 1 commit
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Mathieu Giraud authored
* Refactored main vidjil.cpp (core/windows.cpp, core/windowExtractor.cpp) * Removed unused html output * Better json output (core/json.cpp) * Updated main stdout, with representative sequence for each clone * Updated parameters for FineSegmenter (delta_max) and dynprog (substition cost) * Bugs closed
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- 07 Oct, 2013 1 commit
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Mikaël Salson authored
* Better heuristic, segments more reads (core/segment.cpp) * Better and faster selection of representative read (vidjil.cpp, core/read_chooser.cpp) * Better display of reason of non-segmenting reads * New normalization against a standard (-Z) (core/labels.cpp) * New experimental lazy_msa multiple aligner * New .json output * New unit tests * Bugs closed
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- 03 Jul, 2013 1 commit
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Mathieu Giraud authored
* New selection of representative read (core/read_chooser.cpp) * Faster spaced seed computation (core/tools.cpp) * New unit tests * Bugs closed
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- 26 Apr, 2013 1 commit
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Mikaël Salson authored
* First public release
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