minimap2

Author	SHA1	Message	Date
Heng Li	543fa12e68	r659: for C++ compatibility	2018-01-19 10:40:18 -05:00
Heng Li	d003a00d71	r625: HPC sketch still has one minor issue	2017-12-13 09:40:42 -05:00
Heng Li	68c63f2d68	r606: fixed a sketch bug for long 256bp k-mer sketch() writes {-1,-1} to the output array.	2017-12-06 16:13:29 -05:00
Heng Li	f22a94e868	r538: fixed a long existing bug in HPC k-mer (#47 ) This bug may lead to a wrong minimizer when a HPC k-mer is longer than 256bp. When there is a seed match involving this wrong HPC k-mer, the correct seed sequences do not match in fact. This violates the assumption in align.c and subsequently causes a segfault, which is what #47 has caught. This bug lurked in the earliest piece of code and affected all released minimap2 versions so far. It is extremely rare and does not affect the prebuilt GRCh37/38 indices.	2017-10-28 19:21:10 -04:00
Heng Li	bf2d4f7aec	r486: treat "U" as "T" for RNA reads (#33 )	2017-10-07 18:53:25 -04:00
Heng Li	6db9b7579c	Better MSVC support * get rid of alloca() * no variable-sized arrays	2017-09-03 11:05:55 -04:00
Heng Li	0a3ebdc916	for better windows compatibility	2017-09-02 17:52:33 -04:00
Stefan von Deylen	a3c3db6b9b	ONT source code changes to compile with MSVC 14	2017-08-30 16:25:20 +01:00
Heng Li	10db6b0434	wrong HPC	2017-05-04 17:45:19 +08:00
Heng Li	01baa847a1	Homopolymer-compressed k-mer sketch	2017-04-06 15:37:34 -04:00
Heng Li	2bb0839177	The original sketch.c from minimap	2017-04-05 15:39:55 -04:00