Searched refs:extraband_paired (Results 1 – 8 of 8) sorted by relevance
/dports/biology/gmap/gmap-2020-09-12/src/ |
H A D | dynprog_cdna.c | 153 lbandL = rlengthL - glength + extraband_paired; in bridge_cdna_gap_8_ud() 154 ubandL = extraband_paired; in bridge_cdna_gap_8_ud() 156 lbandR = rlengthR - glength + extraband_paired; in bridge_cdna_gap_8_ud() 157 ubandR = extraband_paired; in bridge_cdna_gap_8_ud() 417 lbandL = rlengthL - glength + extraband_paired; in bridge_cdna_gap_16_ud() 418 ubandL = extraband_paired; in bridge_cdna_gap_16_ud() 421 ubandR = extraband_paired; in bridge_cdna_gap_16_ud() 685 ubandL = extraband_paired; in bridge_cdna_gap() 688 ubandR = extraband_paired; in bridge_cdna_gap() 816 int extraband_paired, double defect_rate) { in Dynprog_cdna_gap() argument [all …]
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H A D | dynprog_cdna.h | 28 int extraband_paired, double defect_rate);
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H A D | dynprog_genome.h | 31 bool jump_late_p, Pairpool_T pairpool, int extraband_paired,
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H A D | dynprog_genome.c | 2898 int cdna_direction, bool watsonp, int extraband_paired, in bridge_intron_gap() argument 2918 ubandL = glengthL - rlength + extraband_paired; in bridge_intron_gap() 2919 lbandL = extraband_paired; in bridge_intron_gap() 2921 ubandR = glengthR - rlength + extraband_paired; in bridge_intron_gap() 2922 lbandR = extraband_paired; in bridge_intron_gap() 3278 bool jump_late_p, Pairpool_T pairpool, int extraband_paired, in Dynprog_genome_gap() argument 3506 Dynprog_compute_bands(&lbandL,&ubandL,rlength,glengthL,extraband_paired,/*widebandp*/true); in Dynprog_genome_gap() 3524 Dynprog_compute_bands(&lbandR,&ubandR,rlength,glengthR,extraband_paired,/*widebandp*/true); in Dynprog_genome_gap() 3780 Dynprog_compute_bands(&lbandL,&ubandL,rlength,glengthL,extraband_paired,/*widebandp*/true); in Dynprog_genome_gap() 3789 Dynprog_compute_bands(&lbandR,&ubandR,rlength,glengthR,extraband_paired,/*widebandp*/true); in Dynprog_genome_gap() [all …]
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H A D | stage3.c | 343 static int extraband_paired; variable 404 extraband_paired = extraband_paired_in; in Stage3_setup() 9316 extraband_paired,defect_rate); in traverse_cdna_gap() 9530 extraband_paired + n_peeled_indels_leftward + n_peeled_indels_rightward, in traverse_genome_gap() 9573 extraband_paired + n_peeled_indels_leftward + n_peeled_indels_rightward, in traverse_genome_gap() 9854 cdna_direction,watsonp,genestrand,jump_late_p,pairpool,extraband_paired, in traverse_dual_genome_gap() 9910 cdna_direction,watsonp,genestrand,jump_late_p,pairpool,extraband_paired, in traverse_dual_genome_gap() 9939 cdna_direction,watsonp,genestrand,jump_late_p,pairpool,extraband_paired, in traverse_dual_genome_gap() 10073 cdna_direction,watsonp,genestrand,jump_late_p,pairpool,extraband_paired, in traverse_dual_genome_gap() 10112 cdna_direction,watsonp,genestrand,jump_late_p,pairpool,extraband_paired, in traverse_dual_genome_gap()
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H A D | gsnap.c | 178 static int extraband_paired = 7;
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H A D | gmap.c | 291 static int extraband_paired = 14; /* This is in addition to length2 - length1 */ variable 7030 extraband_single,extraband_end,extraband_paired, in main()
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/dports/biology/gmap/gmap-2020-09-12/ |
H A D | ChangeLog | 25359 extraband_single and extraband_paired. 25673 extraband_paired. Renamed maxlookback to nullgap. Created nsufflookback 25677 extraband_end and extraband_paired. Renamed maxlookback to nullgap. 25681 extraband_paired. 25684 extraband_paired. Extending last nucleotide at ends if possible. Removing
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