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Haoyu Cheng 7f9c73507d same haplotype chimeric reads detection
2019-12-24 14:43:12 -05:00
.vscode
final DP-based assembly
2019-11-13 20:18:11 -05:00
Assembly.cpp
M50 improved
2019-12-23 09:37:26 -05:00
Assembly.h
phasing
2019-09-02 10:30:14 -04:00
CommandLines.cpp
final DP-based assembly
2019-11-13 20:18:11 -05:00
CommandLines.h
final DP-based assembly
2019-11-13 20:18:11 -05:00
Correct.cpp
M50 improved
2019-12-23 09:37:26 -05:00
Correct.h
M50 improved
2019-12-23 09:37:26 -05:00
debug_assembly.sh
phasing
2019-09-02 10:30:14 -04:00
edlib.cpp
edit distance based error correction
2019-07-07 03:44:59 -04:00
edlib.h
edit distance based error correction
2019-07-07 03:44:59 -04:00
Hash_Table.cpp
backup without bundaries processing
2019-12-17 16:58:20 -05:00
Hash_Table.h
M50 improved
2019-12-23 09:37:26 -05:00
kdq.h
final DP-based assembly
2019-11-13 20:18:11 -05:00
ketopt.h
Using klib
2019-05-10 16:14:01 -04:00
khash.h
final DP-based assembly
2019-11-13 20:18:11 -05:00
kmer.cpp
final DP-based assembly
2019-11-13 20:18:11 -05:00
kmer.h
backup without bundaries processing
2019-12-17 16:58:20 -05:00
kseq.h
added klib_unused to suppress kseq warnings
2019-11-22 14:47:54 -05:00
ksort.h
final DP-based assembly
2019-11-13 20:18:11 -05:00
ksw2_extz2_sse.cpp
fix bugs for overlaps of different length
2019-12-09 17:07:11 -05:00
ksw2.h
fix bugs for overlaps of different length
2019-12-09 17:07:11 -05:00
kvec.h
final DP-based assembly
2019-11-13 20:18:11 -05:00
Levenshtein_distance.cpp
prefilter
2019-07-08 01:06:36 -04:00
Levenshtein_distance.h
for break points at chr11
2019-12-12 00:31:24 -05:00
LICENSE
Initial commit
2019-05-09 15:34:58 -04:00
main.cpp
final DP-based assembly
2019-11-13 20:18:11 -05:00
Makefile
fix bugs for overlaps of different length
2019-12-09 17:07:11 -05:00
Output.cpp
full error correction
2019-07-14 21:13:50 -04:00
Output.h
full error correction
2019-07-14 21:13:50 -04:00
Overlaps.cpp
same haplotype chimeric reads detection
2019-12-24 14:43:12 -05:00
Overlaps.h
M50 improved
2019-12-23 09:37:26 -05:00
POA.cpp
final DP-based assembly
2019-11-13 20:18:11 -05:00
POA.h
final DP-based assembly
2019-11-13 20:18:11 -05:00
Process_Read.cpp
M50 improved
2019-12-23 09:37:26 -05:00
Process_Read.h
M50 improved
2019-12-23 09:37:26 -05:00
README.md
test README
2019-05-09 16:05:32 -04:00
sort_fasta.sh
phasing
2019-09-02 10:30:14 -04:00

README.md

Long_read_assembly

##test

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Description
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
bioinformaticsdenovo-assemblygenomicshifi-readpacbio
Readme MIT
21 MiB
Languages
C++ 93.2%
C 6.5%
Roff 0.2%