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Searched refs:DONOR_MODEL_LEFT_MARGIN (Results 1 – 8 of 8) sorted by relevance

/dports/biology/gmap/gmap-2020-09-12/src/
H A Dmaxent.c99250 i = nucleotides[DONOR_MODEL_LEFT_MARGIN]*4 + nucleotides[DONOR_MODEL_LEFT_MARGIN + 1]; in score_donor_dinucleotide_nucleotides()
99375 if (sequence_okay(sequence,DONOR_MODEL_LEFT_MARGIN+DONOR_MODEL_RIGHT_MARGIN) == false) { in Maxent_donor_prob()
99379 …odds = score_donor_dinucleotide(sequence[DONOR_MODEL_LEFT_MARGIN],sequence[DONOR_MODEL_LEFT_MARGIN… in Maxent_donor_prob()
99389 if (sequence_okay(sequence,DONOR_MODEL_RIGHT_MARGIN+DONOR_MODEL_LEFT_MARGIN) == false) { in Maxent_donor_prob_revcomp()
99414 if (sequence_okay(sequence,DONOR_MODEL_LEFT_MARGIN+DONOR_MODEL_RIGHT_MARGIN) == false) { in Maxent_donor_logodds()
99418 …odds = score_donor_dinucleotide(sequence[DONOR_MODEL_LEFT_MARGIN],sequence[DONOR_MODEL_LEFT_MARGIN… in Maxent_donor_logodds()
H A Dchimera.c832 left -= DONOR_MODEL_LEFT_MARGIN; in find_exonexon_fwd()
835 left += DONOR_MODEL_LEFT_MARGIN; in find_exonexon_fwd()
847 for (i = 0; i < ACCEPTOR_MODEL_LEFT_MARGIN - DONOR_MODEL_LEFT_MARGIN; i++) { in find_exonexon_fwd()
878 for (i = DONOR_MODEL_LEFT_MARGIN, j = ACCEPTOR_MODEL_LEFT_MARGIN; in find_exonexon_fwd()
905 breakpoint_start - DONOR_MODEL_LEFT_MARGIN + i, in find_exonexon_fwd()
928 *exonexonpos = breakpoint_start - DONOR_MODEL_LEFT_MARGIN + i; in find_exonexon_fwd()
970 left += DONOR_MODEL_LEFT_MARGIN; in find_exonexon_rev()
974 left -= DONOR_MODEL_LEFT_MARGIN; in find_exonexon_rev()
1015 for (i = DONOR_MODEL_LEFT_MARGIN, j = ACCEPTOR_MODEL_LEFT_MARGIN; in find_exonexon_rev()
1043 breakpoint_end + DONOR_MODEL_LEFT_MARGIN - i, in find_exonexon_rev()
[all …]
H A Dmaxent.h4 #define DONOR_MODEL_LEFT_MARGIN 3 /* Amount in exon. Does not include GT */ macro
H A Dmaxent_hr.c11 #define DONOR_MODEL_LEFT_MARGIN 3 /* Amount in exon. Does not include GT */ macro
27235 if (splice_pos < chroffset + DONOR_MODEL_LEFT_MARGIN) { in Maxent_hr_donor_prob()
27238 startpos = splice_pos - DONOR_MODEL_LEFT_MARGIN; in Maxent_hr_donor_prob()
H A Ddistant-rna.c246 if (segment_left + splice_pos_qstart >= DONOR_MODEL_LEFT_MARGIN) { in find_spliceends_rna_plus()
762 if (segment_left + splice_pos_qstart >= DONOR_MODEL_LEFT_MARGIN) { in find_spliceends_rna_minus()
H A Dpair.c2106 … left = genomicpos + 1 - DONOR_MODEL_LEFT_MARGIN; /* Add 1 to get from exon end to intron start */ in donor_score()
2107 …Genome_fill_buffer(&chrnum,&nunknowns,genome,left,DONOR_MODEL_LEFT_MARGIN+DONOR_MODEL_RIGHT_MARGIN… in donor_score()
2111 printf("%*s^^\n",DONOR_MODEL_LEFT_MARGIN,""); in donor_score()
2121 …Genome_fill_buffer(&chrnum,&nunknowns,genome,left,DONOR_MODEL_LEFT_MARGIN+DONOR_MODEL_RIGHT_MARGIN… in donor_score()
2122 make_complement_inplace(gbuffer,DONOR_MODEL_LEFT_MARGIN+DONOR_MODEL_RIGHT_MARGIN+1); in donor_score()
2126 printf("%*s^^\n",DONOR_MODEL_LEFT_MARGIN,""); in donor_score()
H A Dsplice.c266 if (novelsplicingp && segmenti_left + splice_qpos_start >= DONOR_MODEL_LEFT_MARGIN) { in Splice_resolve_sense()
1177 if (novelsplicingp && segmenti_left + splice_qpos_start >= DONOR_MODEL_LEFT_MARGIN) { in Splice_resolve_antisense()
H A Dstage3.c12454 DONOR_MODEL_LEFT_MARGIN+DONOR_MODEL_RIGHT_MARGIN+1); in score_introns()