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minimizer filtering apparently works

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Heng Li
2020-03-25 00:38:13 -04:00
parent 84361ba6dd
commit 3e897560c4
5 changed files with 26 additions and 0 deletions
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yak-count.cpp
+21
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@@ -496,3 +496,24 @@ void ha_hf_destroy(void *h)
{
yak_hh_destroy((yak_hh_t*)h);
}
void *ha_gen_mzidx(const hifiasm_opt_t *asm_opt, const void *flt_tab)
{
int64_t cnt[YAK_N_COUNTS];
int peak_hom, peak_het;
yak_copt_t opt;
yak_ch_t *h;
yak_copt_init(&opt);
opt.is_HPC = !asm_opt->no_HPC;
opt.k = asm_opt->k_mer_length;
opt.w = asm_opt->mz_win;
opt.n_thread = asm_opt->thread_num;
opt.bf_shift = asm_opt->bf_shift;
h = yak_count_file(&opt, asm_opt->num_reads, asm_opt->read_file_names, flt_tab);
yak_ch_hist(h, cnt, opt.n_thread);
fprintf(stderr, "[M::%s] count[%d] = %ld (for sanity check)\n", __func__, YAK_MAX_COUNT, (long)cnt[YAK_MAX_COUNT]);
peak_hom = yak_analyze_count(YAK_N_COUNTS, cnt, &peak_het);
if (peak_hom > 0) fprintf(stderr, "[M::%s] peak_hom: %d; peak_het: %d\n", __func__, peak_hom, peak_het);
yak_ch_destroy(h);
return 0;
}