molgenis vip issues - Githubissues

molgenis / vip

Variant Interpretation Pipeline

https://molgenis.github.io/vip/

GNU Lesser General Public License v3.0

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issues

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Update field metadata

#641 dennishendriksen opened 1 hour ago
0
Feat/multiallelic

#640 bartcharbon opened 4 days ago
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Update capice clinvar and vkgl

#639 bartcharbon closed 1 week ago
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Chore/update deps

#638 bartcharbon closed 6 days ago
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update inheritance matcher 3.1.1

#637 bartcharbon closed 1 month ago
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Use <CNV:TR> instead of <STR[num]> to enable VEP annotations & fix unknown sample sex Straglr error

#636 dennishendriksen closed 1 month ago
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Fix #634 Sex not passed to Straglr

#635 dennishendriksen closed 1 month ago
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Sex not passed to Straglr

#634 dennishendriksen closed 1 month ago
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Fix #632 .cram not published in fastq workflow

#633 dennishendriksen closed 2 months ago
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`.cram` not published in fastq workflow

#632 dennishendriksen closed 2 months ago
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Poc/straglr

#631 bartcharbon opened 2 months ago
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Bump vip version to 7.9.0

#630 bartcharbon closed 3 months ago
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Remove DP filter from sample decision tree

#629 bartcharbon closed 3 months ago
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CNV calls contain N instead of the nucleotide on the reference genome

#628 bartcharbon opened 3 months ago
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Filter called variants by user specified bed file

#627 bartcharbon closed 3 months ago
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Fix GADO not working with certain hpo / proband combinations

#626 bartcharbon closed 3 months ago
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Add Spectre CNV calling

#625 bartcharbon closed 3 months ago
1
`_snv.vcf.gz` not published in case of only one chunk

#624 dennishendriksen opened 3 months ago
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fix test.sh runner: fail on 'TIMEOUT' state

#623 dennishendriksen closed 3 months ago
0
Bump vip report to v7.0.0 (add sample tree to report)

#622 bartcharbon closed 3 months ago
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Add "pcr_performed" param to disable incompatible tools

#621 bartcharbon closed 3 months ago
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FASTQ workflow parallelization improvements

#620 dennishendriksen closed 3 months ago
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update NXF_JVM_ARGS: change -Xmx250m to -Xmx512m

#619 dennishendriksen closed 4 months ago
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update fastq config: set 'filter_reads' cpus to 1

#618 dennishendriksen closed 4 months ago
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update default process values for deepvariant_call_duo/trio and coverage

#617 dennishendriksen closed 4 months ago
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bump vip-report 6.0.2 to 6.1.0

#616 dennishendriksen closed 4 months ago
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bump VEP 111.0 to 112.0

#615 dennishendriksen opened 4 months ago
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ClinVar metadata categorical incomplete

#614 dennishendriksen opened 4 months ago
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Support Nanopore adaptive sampling

#613 dennishendriksen closed 4 months ago
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Fix #611 DeepVariant hangs in rare cases

#612 dennishendriksen closed 4 months ago
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DeepVariant hangs in rare cases

#611 dennishendriksen closed 4 months ago
0
Fix #609 Report job can run out of memory

#610 dennishendriksen closed 4 months ago
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Report job can run out of memory

#609 dennishendriksen closed 4 months ago
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bump VKGL 202402 to 202404, ClinVar 20240317 to 20240603

#608 dennishendriksen closed 4 months ago
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bump Nextflow 23.10.0 to 24.04.2

#607 dennishendriksen closed 4 months ago
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Feat/straglr150

#606 bartcharbon closed 4 months ago
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Produce cram coverage and read depth intermediate outputs

#605 dennishendriksen closed 4 months ago
0
Non-deterministic consequence annotations

#604 dennishendriksen opened 4 months ago
0
add `vkgl_vus` test

#603 dennishendriksen closed 4 months ago
0
Green-DB annotations and usage during classification (academic use only, disabled by default)

#602 bartcharbon closed 4 months ago
0
fix gnomAD VEP plugin: gnomAD_QC can be incorrect

#601 dennishendriksen closed 4 months ago
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update gnomAD v4.0 to v4.1

#600 dennishendriksen closed 5 months ago
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Fix null exception when no HPO provided

#599 bartcharbon closed 5 months ago
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Fix GADO not executed when no proband column provided

#598 bartcharbon closed 5 months ago
0
Fix decision tree issues (regarding FLAG and FILE support)

#597 bartcharbon closed 5 months ago
0
install.sh: suppress git detached head message

#596 dennishendriksen closed 6 months ago
0
PoC GTEx tissue scores

#595 bartcharbon opened 6 months ago
0
Feat/bump report 6.0.2

#594 dennishendriksen closed 6 months ago
0
Update straglr to v2

#593 bartcharbon closed 6 months ago
0
doc:add preprint link

#592 dennishendriksen closed 6 months ago
0