r985: optionally report cs/cg on the query strand

PAF only; not well tested
2026-10-01 05:38:13 +08:00 · 2020-04-21 12:37:35 -04:00
parent 29f67a1666
commit da7109fd29
9 changed files with 114 additions and 42 deletions
@@ -36,6 +36,8 @@
 #define MM_F_NO_END_FLT    0x10000000
 #define MM_F_HARD_MLEVEL   0x20000000
 #define MM_F_SAM_HIT_ONLY  0x40000000
+#define MM_F_QSTRAND       (0x80000000LL)
+#define MM_F_NO_INV        (0x100000000LL)

 #define MM_I_HPC          0x1
 #define MM_I_NO_SEQ       0x2