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twolinin
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longphase
GNU General Public License v3.0
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Utilizing variant allele frequency and mismatch rate to reduce phasing errors caused by misaligned reads and miscalling variants.
#86
Yuen28
closed
1 week ago
0
SHAPEIT4 output for haptag
#85
Yijun-Tian
closed
1 week ago
4
How to convert phased VCF to haplotype FASTA
#84
FatYuanBao
opened
1 month ago
2
Speed up remove overlap alignment
#83
sloth-eat-pudding
closed
1 month ago
0
Improving the SNP phasing and INDEL cophasing
#82
Pohuii-Tzeng
closed
1 month ago
0
Pochung
#81
benson10120
closed
1 month ago
0
What longphase phase care about?
#80
Yijun-Tian
closed
1 month ago
13
Pochung
#79
benson10120
closed
1 month ago
2
Update ModCall and ReadCorrection
#78
benson10120
closed
2 months ago
0
LongPhase 1.7.3 Release Notes
#77
twolinin
closed
2 months ago
0
Fix the issue of the FASTA index being loaded multiple times.
#76
twolinin
closed
2 months ago
0
autoreconf: error: aclocal failed with exit status: 2
#75
sahuno
opened
3 months ago
1
Failed to open FASTA file with v1.7
#74
quantrannnn
closed
1 month ago
19
LongPhase 1.7.2 Release Notes
#73
twolinin
closed
3 months ago
0
Header add pg tag
#72
sloth-eat-pudding
closed
3 months ago
0
@PG tag for longphase haplotag
#71
DavidStreid
closed
3 months ago
4
Filtering alignments of the same read if there's an overlap ratio greater than the threshold
#70
twolinin
closed
3 months ago
0
CRAM output for haplotag
#69
leonschuetz
closed
3 months ago
3
Enhance haplotagging with region option in v1.7
#68
zhengzhenxian
closed
4 months ago
2
LongPhase 1.7.1 Release Notes
#67
twolinin
closed
4 months ago
0
SNV with genotype 0/0 phased to 0|1
#66
tgong1
closed
3 months ago
5
Update readme help
#65
sloth-eat-pudding
closed
4 months ago
0
Phasing is only possible for SVs in the INFO field of a VCF that includes RNAMES information
#64
twolinin
closed
4 months ago
0
Develop -> JH
#63
twolinin
closed
4 months ago
0
phasing short tandem repeat VCFs
#62
ilivyatan
opened
4 months ago
2
LongPhase 1.7 Release Notes
#61
twolinin
closed
4 months ago
0
Fix the counter issue during the tagging stage and ensure proper closure of the log file.
#60
linsindian
closed
4 months ago
0
Multithread chromosome
#59
sloth-eat-pudding
closed
4 months ago
0
In readCorrection, decide which read to use by passing two snp or more
#58
benson10120
closed
4 months ago
0
Fix pos order
#57
hank06023
closed
5 months ago
0
Different benchmark datasets showed great differences in LongPhase phasing SNP only.
#56
Jerry-is-a-mouse
opened
5 months ago
2
Merging different alignments of a read into a single alignment
#55
twolinin
closed
5 months ago
0
How to calculate block N50 when co-phasing SNP and SV?
#54
Jerry-is-a-mouse
closed
5 months ago
6
Develop -> JH
#53
twolinin
closed
5 months ago
0
make the baseQuality and edgeWeight modified parameters for users
#52
Pohuii-Tzeng
closed
5 months ago
0
Question on supplementary alignment phasing and tagging
#51
aysegokce
opened
6 months ago
11
make the baseQuality and edgeWeight modified parameters for users
#50
Pohuii-Tzeng
closed
6 months ago
0
Solve the problem where other variants with the same coordinates are also changed after a variant is phased
#49
twolinin
closed
6 months ago
0
haplotag supports phased indels and modification VCF.
#48
twolinin
closed
7 months ago
0
True insertion is phased but not the supporting reads
#47
f-ferraro
closed
4 months ago
5
LongPhase 1.6 Release Notes
#46
twolinin
closed
8 months ago
0
Remove redundant parameters. Remove storeResultPath(). Output phasing…
#45
twolinin
closed
8 months ago
0
Add jemalloc
#44
sloth-eat-pudding
closed
8 months ago
0
ModCall Multithreading Optimization
#43
sloth-eat-pudding
closed
8 months ago
0
Add the weight to the edge which connect to the low quality base
#42
Pohuii-Tzeng
closed
8 months ago
0
Modcall output all modification
#41
twolinin
closed
8 months ago
0
Left = paternal, right = maternal?
#40
PlatonB
closed
4 months ago
1
modcall vcf compatibility with IGV viewer
#39
ilivyatan
closed
7 months ago
2
Adjustments to multithread settings and additional comments.
#38
twolinin
closed
8 months ago
0
Adjustments to multithread settings and additional comments.
#37
twolinin
closed
8 months ago
0
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