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vgteam
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toil-vg
Distributed and cloud computing framework for vg
Apache License 2.0
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14
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Log errors better and update Tidyverse
#859
adamnovak
closed
6 months ago
1
add --ref_paths_file option to surject
#842
glennhickey
opened
3 years ago
0
fix toil-vg map's giraffe support
#841
glennhickey
closed
3 years ago
0
Use UCSC-hosted copies of CI data
#840
adamnovak
closed
3 years ago
0
switch default vg docker image to latest release (v1.34.0)
#839
glennhickey
closed
3 years ago
0
Update combine
#838
glennhickey
closed
3 years ago
0
Vg pedigree workflow deepvariant grch38
#837
cmarkello
opened
3 years ago
0
Vg pedigree workflow deepvariant dev
#836
cmarkello
closed
3 years ago
0
unused argument : `min.cov` in toil-vg vcfeval
#835
zqfang
opened
3 years ago
2
genotype calling for structral variants
#834
zqfang
opened
3 years ago
4
Make more features work with region coalescing
#833
adamnovak
closed
3 years ago
0
Tolerate OSError even on Python 3
#832
adamnovak
closed
3 years ago
0
Singularity code can fail when sandbox_dirname is taken
#831
adamnovak
closed
3 years ago
0
Support coalescing contigs
#830
adamnovak
closed
3 years ago
0
Use a jq that should come as a v2 manifest
#829
adamnovak
closed
3 years ago
2
Use a Docker Hub mirror
#828
adamnovak
closed
3 years ago
2
toil-vg construct fails at building the GBWT index if you haven't specially specified --vcf_phasing files
#827
ruolin
opened
3 years ago
1
Update commands for new mpmap interface
#826
jeizenga
closed
3 years ago
0
Pass ID range components around as strings
#825
adamnovak
opened
4 years ago
0
Encoding issues with coordinates in id_ranges?
#824
mlinderm
opened
4 years ago
1
Note new bcftools will reject the broken 1KG VCFs
#823
adamnovak
closed
3 years ago
0
Chromosome X GRCh38 coordinate handling.
#822
yassineS
closed
4 years ago
5
Make mkdir in dragen job fault tolerant
#821
cmarkello
opened
4 years ago
0
Use os.makedirs(exits_ok=True) for Toil mkdir_p
#820
adamnovak
closed
4 years ago
0
Vg pedigree workflow dev
#819
cmarkello
closed
4 years ago
0
Vg pedigree workflow dev
#818
cmarkello
closed
4 years ago
0
Need better name for analysis subcommand
#817
cmarkello
opened
4 years ago
1
Vg pedigree workflow dev
#816
cmarkello
closed
4 years ago
3
Allow toil-vg sim to use a --gbwt_index and a --sample_name
#815
adamnovak
closed
4 years ago
1
update to latest sveval
#814
glennhickey
closed
4 years ago
0
strtobool lives in a distutils.util submodule
#813
adamnovak
closed
4 years ago
0
Merges to master time out in the CI tests
#812
adamnovak
opened
4 years ago
0
Changed vg gaffe to vg giraffe
#811
xchang1
closed
4 years ago
0
move back to dev version
#810
glennhickey
closed
4 years ago
0
update vg docker, and make pypi release
#809
glennhickey
closed
4 years ago
0
toil-vg not working with singularity on kubernetes
#808
glennhickey
closed
4 years ago
3
switch back to development version
#807
glennhickey
closed
4 years ago
0
run_whole_alignment doesn't output chromosomal BAMs
#806
cmarkello
opened
4 years ago
4
Version 1.6.0
#805
glennhickey
closed
4 years ago
1
pip not python3 compatible
#804
wharvey31
opened
4 years ago
6
vg_construct.py python3 compatibility
#803
cmarkello
closed
4 years ago
2
Added singularity support for Rscript container
#802
cmarkello
closed
4 years ago
3
Vg pedigree workflow
#801
cmarkello
closed
4 years ago
2
fix typo
#800
glennhickey
closed
4 years ago
0
Function call typo in vg_mapeval.py
#799
cmarkello
closed
4 years ago
1
Fix when run on Courtyard
#798
adamnovak
opened
4 years ago
0
All tests fail on Courtyard
#797
cademirch
closed
2 years ago
2
Set up CI to run on Kubernetes-based runners
#796
adamnovak
closed
4 years ago
0
Add a couple singularity tests
#795
glennhickey
closed
4 years ago
1
Configure singularity for NIH Biowulf compatibility
#794
cmarkello
closed
4 years ago
4
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