| /dports/biology/py-bx-python/bx-python-0.8.13/lib/bx/pwm/ |
| H A D | bed_score_aligned_pwm.py | 72 refend = refstart + len(pwm[mx_name])
76 r = regions[mafchrom].find(refstart, refend)
82 print(mafchrom, refstart, refend, region_label, v_name, data)
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| H A D | bed_score_aligned_string.py | 73 refend = refstart + len(mx_name)
77 r = regions[mafchrom].find(refstart, refend)
84 print(mafchrom, refstart, refend, region_label, v_name, data)
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| H A D | pwm_score_motifs.py | 51 refend = refstart + len(targmotif)
54 print(mafchrom, refstart, refend, "'"+targmotif+"'", data)
|
| H A D | pwm_score_positions.py | 57 refend = refstart + len(pwm[id])
60 print(mafchrom, refstart, refend, id.replace(' ', '_'), data)
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib-temp/src/ |
| H A D | vcfprimers.cpp | 127 int refend = var.position + var.ref.size() - 1; in main() local
129 string rightprimer = ref.getSubSequence(var.sequenceName, refend, primerLength); in main()
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| H A D | vcfentropy.cpp | 128 int refend = var.position + var.ref.size() - 1; in main() local
130 string rightseq = ref.getSubSequence(var.sequenceName, refend, windowSize); in main()
|
| /dports/biology/freebayes/freebayes-1.3.5/vcflib/src/ |
| H A D | vcfprimers.cpp | 127 int refend = var.position + var.ref.size() - 1; in main() local
129 string rightprimer = ref.getSubSequence(var.sequenceName, refend, primerLength); in main()
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| H A D | vcfentropy.cpp | 128 int refend = var.position + var.ref.size() - 1; in main() local
130 string rightseq = ref.getSubSequence(var.sequenceName, refend, windowSize); in main()
|
| /dports/biology/vcflib/vcflib-1.0.2/src/ |
| H A D | vcfprimers.cpp | 138 int refend = var.position + var.ref.size() - 1; in main() local
140 string rightprimer = ref.getSubSequence(var.sequenceName, refend, primerLength); in main()
|
| H A D | vcfentropy.cpp | 140 int refend = var.position + var.ref.size() - 1; in main() local
142 string rightseq = ref.getSubSequence(var.sequenceName, refend, windowSize); in main()
|
| /dports/japanese/groff/groff-1.18.1.1/src/libs/libbib/ |
| H A D | linear.cc | 412 const char *refend = find_end(bufend, found + keys[0]->length()); in search() local
415 if (!search_and_check(keys[i], refstart, refend)) in search()
419 *lengthp = refend - refstart; in search()
422 buffer = refend; in search()
|
| /dports/textproc/groff/groff-1.22.4/src/libs/libbib/ |
| H A D | linear.cpp | 410 const char *refend = find_end(bufend, found + keys[0]->length()); in search() local
413 if (!search_and_check(keys[i], refstart, refend)) in search()
417 *lengthp = refend - refstart; in search()
420 buffer = refend; in search()
|
| /dports/biology/emboss/EMBOSS-6.6.0/ajax/ensembl/ |
| H A D | ensslice.c | 6419 ajuint refend = 0U; in ensSliceadaptorRetrieveNormalisedprojection() local
6591 refend = 0; in ensSliceadaptorRetrieveNormalisedprojection()
6600 refend = ensAssemblyexceptionGetExceptionStart(ae) - 1; in ensSliceadaptorRetrieveNormalisedprojection()
6618 refend, in ensSliceadaptorRetrieveNormalisedprojection()
6623 = refend in ensSliceadaptorRetrieveNormalisedprojection()
6641 refend = exclength; in ensSliceadaptorRetrieveNormalisedprojection()
6643 difference = (excend - excstart) - (refend - refstart); in ensSliceadaptorRetrieveNormalisedprojection()
6656 refend + difference, in ensSliceadaptorRetrieveNormalisedprojection()
6670 refend, in ensSliceadaptorRetrieveNormalisedprojection()
6684 refend, in ensSliceadaptorRetrieveNormalisedprojection()
|
| /dports/math/dune-grid/dune-grid-de36e4b4e99da4cd7a120a39779345e701821115/dune/grid/test/ |
| H A D | checkindexset.hh | 403 const Iterator refend = view.template end< 0 >(); in checkIndexSetForCodim() local
406 assert( refit != refend ); in checkIndexSetForCodim()
|
| /dports/biology/sra-tools/sra-tools-2.11.0/tools/bam-loader/ |
| H A D | loader-imp.c | 1356 int refend = refPos; in FixOverhangingAlignment() local
1370 refend += len; in FixOverhangingAlignment()
1374 refend += len; in FixOverhangingAlignment()
1383 if (refend > refLen) { in FixOverhangingAlignment()
1384 int const chop = refend - refLen; in FixOverhangingAlignment()
|
| /dports/biology/stringtie/stringtie-2.1.1/ |
| H A D | rlink.cpp | 2482 int &edgeno,int &lastgpos,GArray<GEdge>& guideedge, int refend=0){ in create_graph() argument
2810 if(mergeMode && (int)junction[njs]->end==refend) { // this node goes straight to sink in create_graph()
12588 CReadAln *guide_to_read(GffObj *t, int g, GList<CJunction>& junction, int refend) { in guide_to_read() argument
12621 CJunction* njsink=add_junction(t->end, refend, junction, r->strand); in guide_to_read()
12633 int refend = bdata->end+1; in build_merge() local
12648 CReadAln *rg=guide_to_read(guides[i],i,junction,refend); in build_merge()
12724 nj=add_junction(rd.end, refend, junction, strand); in build_merge()
12730 nj=add_junction(rd.end, refend, junction, strand); in build_merge()
13107 bundle2graph,no2gnode,transfrag,gpos,NULL,edgeno[s][b],lastgpos[s][b],unused,refend); in build_merge()
13277 int refend=bdata->end; in count_good_junctions() local
[all …]
|
| /dports/french/mythes/fr-mythes-2.3/ |
| H A D | thes_fr.idx | 27880 refend|3836812
|
| H A D | thes_fr.dat | 3549 (Nom)|entaille|refend
25676 (Nom Verbe)|anglet|refend|balafre|cicatrice|coupure|estafilade|taillade|blessure|plaie|mal|lésion|c…
59119 refend|1
|
| /dports/www/dooble/dooble-2021.12.05/Dictionaries/oc_FR/ |
| H A D | oc_FR.dic | 47162 refend/sF
|
| /dports/www/dooble/dooble-2021.12.05/Dictionaries/fr_FR/ |
| H A D | fr.dic | 65332 refend/S.
|
| /dports/editors/texstudio/texstudio-4.1.2/utilities/dictionaries/ |
| H A D | th_fr_FR_v2.dat | 3411 (Nom)|entaille|refend
24209 (Nom Verbe)|anglet|refend|balafre|cicatrice|coupure|estafilade|taillade|blessure|plaie|mal|l�sion|c…
55850 refend|1
|
| /dports/games/tanglet/tanglet-1.6.0/wordlists/ |
| H A D | fr | 214279 refend
|
| /dports/french/hunspell/fr-hunspell-6.4.1/ |
| H A D | fr-classique.dic | 66528 refend/S.() po:nom is:mas
|
| H A D | fr-moderne.dic | 65540 refend/S.() po:nom is:mas
|
| H A D | fr-reforme1990.dic | 65462 refend/S.() po:nom is:mas
|