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vatlab
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varianttools
software tool for the manipulation, annotation, selection, and analysis of variants in the context of next-gen sequencing analysis
https://vatlab.github.io/vat-docs/
GNU General Public License v3.0
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http://varianttools.sourceforge.net/
#60
fabiennejh
closed
6 years ago
1
Require test for the new annotation of 1000 genomes
#59
HenryLeongStat
opened
6 years ago
1
WSS Association Test - bug with MAF selection
#58
fabiennejh
opened
6 years ago
6
Upgrade liftover tool in branch
#57
BoPeng
closed
6 years ago
1
R error with the KING pipeline
#56
BoPeng
closed
6 years ago
23
Stop combining variants in `vtools export`
#55
BoPeng
opened
6 years ago
1
Hemizygous variants in association test
#54
MBeyens
closed
6 years ago
3
Revive Variant Simulation Tools
#53
BoPeng
opened
7 years ago
0
Association test (BurdenTest) error and problem for Chromosome 1 (HDF5)
#52
HenryLeongStat
opened
7 years ago
0
ValueError in Assotest
#51
jma7
closed
7 years ago
15
Compile error on Linux server
#50
HenryLeongStat
closed
6 years ago
12
Associate analysis error in the test for hdf5
#49
HenryLeongStat
closed
7 years ago
8
Duplicate files in annotation
#48
HenryLeongStat
closed
7 years ago
1
vtools admin merge-samples does not work for hdf5
#47
BoPeng
opened
7 years ago
0
vtools remove genotype does not work for hdf5
#46
BoPeng
opened
7 years ago
2
vtools remove variants does not work for hdf5
#45
BoPeng
opened
7 years ago
2
vtools remove samples does not work for hdf5
#44
BoPeng
closed
6 years ago
1
vtools show genotypes does not work for hdf5
#43
BoPeng
closed
6 years ago
1
Status of new hdf5 storage model.
#42
BoPeng
opened
7 years ago
0
Can I use the merged vcf file as an input file?
#41
o147942
closed
7 years ago
1
Change options of %pull and %push
#40
BoPeng
closed
7 years ago
2
The V3 branch.
#39
BoPeng
closed
6 years ago
0
Problem with vtools select
#38
BoPeng
opened
7 years ago
1
multiple fields in genotype
#37
dridk
closed
7 years ago
1
could you tell me the file format for flag --group_by?
#36
blairzhang126
closed
7 years ago
7
Export genotype() and samples() in vcf output.
#35
BoPeng
closed
7 years ago
1
Compile with gcc 6.1
#34
gaow
closed
7 years ago
6
How to export FORMAT fields in vcf format
#33
BoPeng
opened
7 years ago
3
Error: Existing database has different linking fields
#32
MBeyens
closed
6 years ago
4
error in test_pipeline.py
#31
jma7
closed
7 years ago
1
HDF5 stability issues
#30
gaow
opened
7 years ago
1
Tests too large for travisCI
#29
BoPeng
opened
7 years ago
2
error in testRext and testWeights
#28
jma7
opened
7 years ago
2
import error in vt_sqlite3.py
#27
jma7
closed
7 years ago
0
Genotype annotations
#26
gaow
opened
7 years ago
1
Limitations of vtools genotype database #11
#25
BoPeng
opened
7 years ago
0
Removing python 2 support.
#24
BoPeng
closed
7 years ago
0
Improving variant tools homepage (move to github pages?)
#23
BoPeng
opened
7 years ago
0
Set up Travis CI tests for variant tools for continuous intergration
#22
BoPeng
closed
7 years ago
4
GnomAD resource and splitting multiallelic entries when importing VCF
#21
AlesMaver
closed
7 years ago
13
Association tests failing while processing group: Operator FindGenotypePattern raises an exception (Input genotype matrix does not have a variant)
#20
npdeloss
opened
7 years ago
4
Error in association analysis
#19
NandiniBN
opened
7 years ago
1
Installation issues on Debian8 3.16
#18
rchapleau
closed
7 years ago
6
vtools use dbNSFP results in 'WARNING: Failed to download database or downloaded database unusable'
#17
npdeloss
closed
7 years ago
4
ExAC annotation
#16
BoPeng
opened
7 years ago
1
Customized reference genome
#15
gaow
closed
7 years ago
2
why your left join is so fast ?
#14
dridk
closed
7 years ago
1
gene base annotation
#13
dridk
closed
7 years ago
4
wtools : REST API on top of Variant tools
#12
dridk
opened
7 years ago
0
--from_stat VTOOLS v 2.7.0
#11
BoPeng
opened
7 years ago
1
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