Searched refs:gfmBw (Results 1 – 5 of 5) sorted by relevance
/dports/biology/hisat2/hisat2-2.2.1/ |
H A D | aligner_seed2.h | 2526 gfmBw, // mirror index in go() 2612 gfmBw, // mirror index in advance() 2656 gfmBw, in advance() 2847 gfmBw, in init() 2875 gfmBw, in init() 2947 gfmBw, in init() 2975 gfmBw, in init() 3510 gfmBw, // mirror index in bounce() 3710 gfmBw, // mirror index in followBestOutgoing() 3754 tloc.initFromRow(topb, gfmBw.gh(), gfmBw.gfm()); in nextLocsBi() [all …]
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H A D | aligner_sw_driver.h | 339 const GFM<index_t>* gfmBw, // BWT' 388 const GFM<index_t>* gfmBw, // BWT' 488 const GFM<index_t>* gfmBw, // BWT' 853 bool bwContains = gfmBw != NULL && gfmBw->contains(tmp_rdseq_); in extend() 925 if(lim > 0 && gfmBw != NULL) { in extend() 926 const GFM<index_t> *gfm = gfmBw; in extend() 998 bool bwContains = gfmBw != NULL && gfmBw->contains(tmp_rdseq_); in extend() 1017 const GFM<index_t>* gfmBw, // BWT in prioritizeSATups() argument 1102 gfmBw, in prioritizeSATups() 1384 gfmBw, // BWT' in extendSeeds() [all …]
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H A D | aligner_driver.h | 202 const GFM<index_t>& gfmBw,
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H A D | aligner_seed.cpp | 509 GFM gfmBw( in main() local
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H A D | gfm.h | 1239 GFM<index_t> *gfmBw = new GFM<index_t>( in fromStrings() local 1262 return make_pair(gfmFw, gfmBw); in fromStrings()
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