Home
last modified time | relevance | path

Searched refs:bam_name2id (Results 1 – 25 of 26) sorted by relevance

12

/dports/biology/py-pysam/pysam-0.18.0/samtools/
H A Dbedcov.c195 *p = 0; tid = bam_name2id(aux[0]->header, q); *p = c; in main_bedcov()
H A Dbedcov.c.pysam.c197 *p = 0; tid = bam_name2id(aux[0]->header, q); *p = c; in main_bedcov()
H A Dphase.c525 int tid = bam_name2id(h, str->s); in khash_t()
H A Dphase.c.pysam.c527 int tid = bam_name2id(h, str->s); in khash_t()
H A Dstats.c1849 int tid = bam_name2id(stats->info->sam_header, line.s); in init_regions()
H A Dstats.c.pysam.c1851 int tid = bam_name2id(stats->info->sam_header, line.s); in init_regions()
/dports/biology/samtools/samtools-1.14/
H A Dbedcov.c195 *p = 0; tid = bam_name2id(aux[0]->header, q); *p = c; in main_bedcov()
H A Dphase.c525 int tid = bam_name2id(h, str->s); in khash_t()
H A Dstats.c1849 int tid = bam_name2id(stats->info->sam_header, line.s); in init_regions()
/dports/biology/vt/vt-0.57721/lib/htslib/htslib/
H A Dsam.h277 int bam_name2id(bam_hdr_t *h, const char *ref);
/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/htslib/
H A Dsam.h277 int bam_name2id(bam_hdr_t *h, const char *ref);
/dports/biology/stacks/stacks-2.4/htslib/htslib/
H A Dsam.h277 int bam_name2id(bam_hdr_t *h, const char *ref);
/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/htslib/
H A Dsam.h270 int bam_name2id(bam_hdr_t *h, const char *ref);
/dports/biology/vt/vt-0.57721/lib/htslib/
H A Dsam.c273 int bam_name2id(bam_hdr_t *h, const char *ref) in bam_name2id() function
858 … return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, hts_itr_query, bam_readrec); in sam_itr_querys()
868 return hts_itr_regions(idx, reglist, regcount, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regions()
1213 c->tid = bam_name2id(h, q); in sam_parse1()
1261 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/stacks/stacks-2.4/htslib/
H A Dsam.c273 int bam_name2id(bam_hdr_t *h, const char *ref) in bam_name2id() function
854 … return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, hts_itr_query, bam_readrec); in sam_itr_querys()
864 return hts_itr_regions(idx, reglist, regcount, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regions()
1209 c->tid = bam_name2id(h, q); in sam_parse1()
1257 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/
H A Dsam.c271 int bam_name2id(bam_hdr_t *h, const char *ref) in bam_name2id() function
877 … return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, hts_itr_query, bam_readrec); in sam_itr_querys()
887 return hts_itr_regions(idx, reglist, regcount, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regions()
1237 c->tid = bam_name2id(h, q); in sam_parse1()
1285 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/
H A Dsam.c276 int bam_name2id(bam_hdr_t *h, const char *ref) in bam_name2id() function
692 … return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, hts_itr_query, bam_readrec); in sam_itr_querys()
969 c->tid = bam_name2id(h, q); in sam_parse1()
1017 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/
H A Dsam.c398 return hts_parse_region(s, tid, beg, end, (hts_name2id_f)bam_name2id, h, flags); in sam_parse_region()
1301 return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_querys()
1323 … r_list = hts_reglist_create(regarray, regcount, &r_count, hdr, (hts_name2id_f)(bam_name2id)); in sam_itr_regarray()
1326 itr = hts_itr_regions(idx, r_list, r_count, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regarray()
1347 return hts_itr_regions(idx, reglist, regcount, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regions()
2132 c->tid = bam_name2id(h, q); in sam_parse1()
2177 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/htslib/
H A Dsam.h772 static inline int bam_name2id(sam_hdr_t *h, const char *ref) { return sam_hdr_name2tid(h, ref); } in bam_name2id() function
/dports/biology/py-pysam/pysam-0.18.0/htslib/htslib/
H A Dsam.h772 static inline int bam_name2id(sam_hdr_t *h, const char *ref) { return sam_hdr_name2tid(h, ref); } in bam_name2id() function
/dports/biology/htslib/htslib-1.14/htslib/
H A Dsam.h772 static inline int bam_name2id(sam_hdr_t *h, const char *ref) { return sam_hdr_name2tid(h, ref); } in bam_name2id() function
/dports/biology/py-pysam/pysam-0.18.0/htslib/
H A Dsam.c400 return hts_parse_region(s, tid, beg, end, (hts_name2id_f)bam_name2id, h, flags); in sam_parse_region()
1649 return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_querys()
1671 … r_list = hts_reglist_create(regarray, regcount, &r_count, hdr, (hts_name2id_f)(bam_name2id)); in sam_itr_regarray()
1674 itr = hts_itr_regions(idx, r_list, r_count, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regarray()
1695 return hts_itr_regions(idx, reglist, regcount, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regions()
2686 c->tid = bam_name2id(h, q); in sam_parse1()
2731 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/htslib/htslib-1.14/
H A Dsam.c400 return hts_parse_region(s, tid, beg, end, (hts_name2id_f)bam_name2id, h, flags); in sam_parse_region()
1649 return hts_itr_querys(idx, region, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_querys()
1671 … r_list = hts_reglist_create(regarray, regcount, &r_count, hdr, (hts_name2id_f)(bam_name2id)); in sam_itr_regarray()
1674 itr = hts_itr_regions(idx, r_list, r_count, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regarray()
1695 return hts_itr_regions(idx, reglist, regcount, (hts_name2id_f)(bam_name2id), hdr, in sam_itr_regions()
2686 c->tid = bam_name2id(h, q); in sam_parse1()
2731 c->mtid = bam_name2id(h, q); in sam_parse1()
/dports/biology/py-pysam/pysam-0.18.0/pysam/
H A Dlibcalignmentfile.pyx531 tid = bam_name2id(self.ptr, reference)
H A Dlibchtslib.pxd1038 int bam_name2id(bam_hdr_t *h, const char *ref)

12