Searched refs:extendL (Results 1 – 6 of 6) sorted by relevance
26 trA->extendL=0; in extendAlign()47 trA->extendL=iExt; in extendAlign()71 trA->extendL=i+1; in extendAlign()88 bool extDone = trA->extendL > 0; in extendAlign()
63 …bool exonLongEnough = (WA[iW][iS1][WA_Length]+trA1.extendL) >= P.alignSJoverhangMin; //TODO new pa… in stitchWindowSeeds()89 …bool exonLongEnough = (WA[iW][iS1][WA_Length]+trA1.extendL) >= P.alignSJoverhangMin; //TODO new pa… in stitchWindowSeeds()151 trA.exons[0][EX_R] -= trA1.extendL; in stitchWindowSeeds()152 trA.exons[0][EX_G] -= trA1.extendL; in stitchWindowSeeds()153 trA.exons[0][EX_L] += trA1.extendL; in stitchWindowSeeds()168 … trA.exons[trA.nExons-1][EX_L] += trA1.extendL;//extend the length of the last exon in stitchWindowSeeds()
51 trA.exons[0][EX_R] = trA.rStart = trA.rStart - trAstep1.extendL; in stitchWindowAligns()52 trA.exons[0][EX_G] = trA.gStart = trA.gStart - trAstep1.extendL; in stitchWindowAligns()53 trA.exons[0][EX_L] += trAstep1.extendL; in stitchWindowAligns()72 tR2 += trAstep1.extendL; in stitchWindowAligns()73 tG2 += trAstep1.extendL; in stitchWindowAligns()75 … trA.exons[trA.nExons-1][EX_L] += trAstep1.extendL;//extend the length of the last exon in stitchWindowAligns()
380 trA->exons[trA->nExons-1][EX_L] += trExtend.extendL; in stitchAlignToTranscript()397 trA->exons[trA->nExons][EX_R] -= trExtend.extendL; in stitchAlignToTranscript()398 trA->exons[trA->nExons][EX_G] -= trExtend.extendL; in stitchAlignToTranscript()399 trA->exons[trA->nExons][EX_L] += trExtend.extendL; in stitchAlignToTranscript()
9 extendL=0; in reset()
45 uint extendL; //extension length variable