Heng Li cdc2a1e29f r92: fixed a bug for overlapping alignment ...

On the PBcR example E. coli reads, miniasm gives one circular unitig.

2017-06-27 22:03:31 -04:00

.gitignore

make sdust working with kalloc

2017-04-06 15:51:36 -04:00

align.c

r87: fixed a bug in ksw2

2017-06-27 13:29:48 -04:00

bseq.c

index can be compiled; not tested yet

2017-04-07 15:30:30 -04:00

bseq.h

index can be compiled; not tested yet

2017-04-07 15:30:30 -04:00

chain.c

r89: added minimal number of minimizer counts

2017-06-27 18:43:15 -04:00

format.c

use long options

2017-06-26 12:31:36 -04:00

index.c

r77: fixed an index loading bug (offset not set)

2017-06-26 13:56:25 -04:00

kalloc.c

number of allocated units must be an even number

2017-06-26 23:15:30 -04:00

kalloc.h

Homopolymer-compressed k-mer sketch

2017-04-06 15:37:34 -04:00

kdq.h

make sdust working with kalloc

2017-04-06 15:51:36 -04:00

khash.h

index can be compiled; not tested yet

2017-04-07 15:30:30 -04:00

kseq.h

Homopolymer-compressed k-mer sketch

2017-04-06 15:37:34 -04:00

ksort.h

chaining

2017-05-03 20:47:29 +08:00

ksw2_extz2_sse.c

r88: fixed an out-of-boundary bug in ksw2

2017-06-27 14:50:31 -04:00

ksw2.h

r87: fixed a bug in ksw2

2017-06-27 13:29:48 -04:00

kthread.c

index can be compiled; not tested yet

2017-04-07 15:30:30 -04:00

kthread.h

index can be compiled; not tested yet

2017-04-07 15:30:30 -04:00

kvec.h

Homopolymer-compressed k-mer sketch

2017-04-06 15:37:34 -04:00

main.c

r92: fixed a bug for overlapping alignment

2017-06-27 22:03:31 -04:00

Makefile

enabled kalloc (was a mistake)

2017-06-26 15:41:55 -04:00

map.c

r92: fixed a bug for overlapping alignment

2017-06-27 22:03:31 -04:00

minimap.h

r89: added minimal number of minimizer counts

2017-06-27 18:43:15 -04:00

misc.c

sort positions in each bucket

2017-04-12 13:31:12 -04:00

mmpriv.h

r92: fixed a bug for overlapping alignment

2017-06-27 22:03:31 -04:00

sdust.c

fixed memory leaks

2017-06-06 21:45:55 -04:00

sdust.h

fixed a few memory leaks

2017-04-13 23:05:19 -04:00

sketch.c

wrong HPC

2017-05-04 17:45:19 +08:00

Description

A versatile pairwise aligner for genomic and spliced nucleotide sequences

bioinformaticsgenomicssequence-alignmentspliced-alignment

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