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Searched refs:exonend (Results 1 – 7 of 7) sorted by relevance

/dports/biology/py-biopython/biopython-1.79/Bio/AlignIO/
H A DMafIO.py546 for exonstart, exonend in zip(starts, ends):
547 exonlen = exonend - exonstart
551 % (exonstart, exonend, exonlen)
560 for exonstart, exonend in zip(starts, ends):
563 map(str, self._region2bin(exonstart, exonend))
568 "(start=%d, end=%d)" % (exonstart, exonend)
595 % (possible_bins, exonstart, exonend - 1, exonend - 1)
776 for exonstart, exonend in zip(starts, ends):
778 for real_pos in range(exonstart, exonend):
/dports/biology/gmap/gmap-2020-09-12/src/
H A Dget-genome.c598 if (exonstart <= exonend) { in genemap_print_exons()
600 exonhigh = exonend; in genemap_print_exons()
605 exonlow = exonend; in genemap_print_exons()
647 if (exonstart <= exonend) { in genemap_print_sequence()
649 exonhigh = exonend; in genemap_print_sequence()
654 exonlow = exonend; in genemap_print_sequence()
706 if (exonstart <= exonend) { in genemap_print_gsequence()
708 exonhigh = exonend; in genemap_print_gsequence()
724 exonlow = exonend; in genemap_print_gsequence()
758 Chrpos_T exonstart, exonend; in genemap_print_unique() local
[all …]
H A Diit-read.c6791 if (exonend < x) { in IIT_gene_overlap()
6981 if (exonend < x) { in IIT_gene_overlapp()
7005 } else if (exonend > y) { in IIT_gene_overlapp()
7097 while (pos > exonend) { in IIT_unique_positions()
7102 exonstart = exonend = -1U; in IIT_unique_positions()
7150 while (pos < exonend) { in IIT_unique_positions()
7155 exonstart = exonend = 0; in IIT_unique_positions()
7260 while (pos > exonend) { in IIT_unique_positions_given_others()
7265 exonstart = exonend = -1U; in IIT_unique_positions_given_others()
7313 while (pos < exonend) { in IIT_unique_positions_given_others()
[all …]
H A Dsplicetrie_build.c1237 Chrpos_T exonstart, exonend;
1249 if (sscanf(p,"%u %u",&exonstart,&exonend) != 2) {
1252 *donors = Uintlist_push(*donors,exonend);
1264 *donors = Uintlist_pop(*donors,&exonend);
/dports/biology/stringtie/stringtie-2.1.1/gclib/
H A Dgff.cpp281 uint exonend=exonstart+exonlen-1; in BEDLine() local
282 if ((uint)exonstart>fend || exonend>fend) { in BEDLine()
283 …GMessage("Warning: BED exon %d-%d is outside record boundary at line:\n%s\n",exonstart,exonend, l); in BEDLine()
286 ex.start=exonstart;ex.end=exonend; in BEDLine()
/dports/biology/libgff/libgff-2.0.0/src/
H A Dgff.cpp281 uint exonend=exonstart+exonlen-1; in BEDLine() local
282 if ((uint)exonstart>fend || exonend>fend) { in BEDLine()
283 …GMessage("Warning: BED exon %d-%d is outside record boundary at line:\n%s\n",exonstart,exonend, l); in BEDLine()
286 ex.start=exonstart;ex.end=exonend; in BEDLine()
/dports/biology/gffread/gffread-0.12.7/gclib/
H A Dgff.cpp285 uint exonend=exonstart+exonlen-1; in BEDLine() local
286 if ((uint)exonstart>fend || exonend>fend) { in BEDLine()
287 …GMessage("Warning: BED exon %d-%d is outside record boundary at line:\n%s\n",exonstart,exonend, l); in BEDLine()
290 ex.start=exonstart;ex.end=exonend; in BEDLine()