fork/minimap2
1
0
Fork 0
mirror of https://github.com/lh3/minimap2.git synced 2026-09-20 02:57:55 +08:00
Code Issues Packages Projects Releases Wiki Activity

r1149: implemented random open syncmer

Browse Source 
On the mm2-update dataset, -j8 leads to sparser k-mer selection at higher
accuracy. The speed becomes a little slower. There seems a benefit but not a
big one.
This commit is contained in:
Heng Li
2022-10-21 19:07:28 -04:00
parent cefd0d9f6c
commit c2f07ff2ac
9 changed files with 84 additions and 8 deletions
Download Patch File Download Diff File Expand all files Collapse all files

2
map.c
View File

@@ -67,7 +67,7 @@ static void collect_minimizers(void *km, const mm_mapopt_t *opt, const mm_idx_t
mv->n = 0;
for (i = n = 0; i < n_segs; ++i) {
size_t j;
mm_sketch(km, seqs[i], qlens[i], mi->w, mi->k, i, mi->flag&MM_I_HPC, mv);
mm_sketch2(km, seqs[i], qlens[i], mi->w, mi->k, i, mi->flag&MM_I_HPC, mi->flag&MM_I_SYNCMER, mv);
for (j = n; j < mv->n; ++j)
mv->a[j].y += sum << 1;
if (opt->sdust_thres > 0) // mask low-complexity minimizers