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hall-lab
/
svtyper
Bayesian genotyper for structural variants
MIT License
125
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55
forks
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set alt clip to 0 if there is no other alt support
#78
brentp
closed
6 years ago
5
error/warning on singleton BND
#77
brentp
closed
6 years ago
1
Turn off library messages by default
#76
ernfrid
closed
6 years ago
2
svtyper-classic: only print Reading metrics message once
#75
brentp
closed
6 years ago
2
python3 svtyper
#74
thomasfaraut
opened
6 years ago
3
Genotyping calculation improvements
#73
ernfrid
closed
6 years ago
0
Update pysam dependency to pysam>=0.12.0
#72
ernfrid
closed
6 years ago
0
Using svtyper for other sv callers
#71
MehmetGoktay
opened
6 years ago
3
argument list too long
#70
GangLiTarheel
closed
6 years ago
0
speed up options
#69
ramaniak
opened
6 years ago
2
SVtyper: Filtering Svs based on qual Column
#68
MehmetGoktay
opened
6 years ago
0
organizational revamp and multicore feature
#67
indraniel
closed
6 years ago
2
recommendations for pysam version
#66
Kurt-Hetrick
closed
6 years ago
2
Reference genotypes with no support
#65
ernfrid
opened
6 years ago
1
KeyError: 'MATEID'
#64
YiweiNiu
opened
6 years ago
3
SVTyper discarding VCF entries
#63
CBorreda
opened
6 years ago
0
How to genotype many samples
#62
54tuifeimo
opened
7 years ago
1
Update README.md to correctly clone repo
#61
avakel
closed
7 years ago
1
Question
#60
ldorozco
opened
7 years ago
2
Error while processing Lumpy results
#59
arp31089
opened
7 years ago
3
memory error
#58
djakubosky
opened
7 years ago
2
dont grab lib (and read group) unless needed and no copy
#57
brentp
closed
7 years ago
0
limit number of reads in gather_reads
#56
brentp
closed
7 years ago
0
unknown error <- the worst bug report.
#55
zeeev
closed
7 years ago
2
Improve breakpoint support evaluation
#54
ernfrid
closed
7 years ago
0
Update labeling of soft-clip support
#53
ernfrid
closed
7 years ago
1
add in separate tracking of clipped read support of alts.
#52
ernfrid
closed
7 years ago
0
AttributeError: 'csamtools.AlignedRead' object has no attribute 'has_tag'
#51
aj03
closed
7 years ago
1
svtyper stucks
#50
woodoo46
closed
7 years ago
2
(WIP) Split order
#49
ernfrid
closed
7 years ago
0
added necessary vcf #38
#48
cc2qe
closed
7 years ago
0
update travis tests #38
#47
cc2qe
closed
7 years ago
0
(WIP) Fixes to splitread identification
#46
ernfrid
closed
7 years ago
0
Remove dead code block
#45
ernfrid
closed
7 years ago
0
V0.1.0 updates
#44
cc2qe
closed
7 years ago
0
V0.1.0 updates
#43
cc2qe
closed
7 years ago
0
v0.1.0 readme, help menu
#42
cc2qe
closed
7 years ago
0
v0.1.0 release candidate
#41
cc2qe
closed
7 years ago
0
updates to v0.1.0
#40
cc2qe
closed
7 years ago
0
SVTYPE=INS
#39
zeeev
closed
7 years ago
2
Update test for v0.1.0
#38
ernfrid
closed
7 years ago
0
AttributeError: 'pysam.csamtools.AlignedRead' object has no attribute 'inferred_length'
#37
bjkelly
closed
8 years ago
3
'module' object has no attribute 'AlignmentFile'
#36
srynobio
closed
8 years ago
5
CRAM support
#35
cc2qe
closed
7 years ago
0
more robust header parsing (#23)
#34
cc2qe
closed
8 years ago
0
tlen to template_length (#12) and IndexError: list index out of range…
#33
cc2qe
closed
8 years ago
0
updates to candidate v0.1.0
#32
cc2qe
closed
8 years ago
0
development branch for v0.1.0
#31
cc2qe
closed
8 years ago
0
fix large memory leak, thanks to @ernfrid
#30
cc2qe
closed
8 years ago
0
use conda for pysam
#29
ernfrid
closed
8 years ago
1
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