Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / brentp/slivar issues and pull requests

#100 - list of impactful vocab

Issue - State: closed - Opened by team-tomato-salad about 3 years ago - 2 comments

#99 - make-genotate genomes files

Issue - State: closed - Opened by skanwal about 3 years ago - 2 comments

#98 - Data driven cutoffs

Issue - State: closed - Opened by Madelinehazel about 3 years ago - 5 comments

#98 - Data driven cutoffs

Issue - State: closed - Opened by Madelinehazel about 3 years ago - 5 comments

#97 - Issue using adjusted impactful txt

Issue - State: closed - Opened by team-tomato-salad over 3 years ago - 1 comment

#97 - Issue using adjusted impactful txt

Issue - State: closed - Opened by team-tomato-salad over 3 years ago - 1 comment

#96 - build command

Issue - State: closed - Opened by JakeHagen over 3 years ago - 8 comments

#95 - How to filter for VEP plug-in annotations in INFO field

Issue - State: closed - Opened by seboyden over 3 years ago - 1 comment

#95 - How to filter for VEP plug-in annotations in INFO field

Issue - State: closed - Opened by seboyden over 3 years ago - 1 comment

#94 - Issue using zip file with slivar docker

Issue - State: closed - Opened by srynobio over 3 years ago - 17 comments

#94 - Issue using zip file with slivar docker

Issue - State: closed - Opened by srynobio over 3 years ago - 17 comments

#93 - filter for presence/absence of a flag tag in the INFO field

Issue - State: closed - Opened by edg1983 over 3 years ago - 3 comments

#92 - Slivar for SVtyper vcf

Issue - State: closed - Opened by nroak over 3 years ago - 3 comments

#91 - Link for gene_description returns 404

Issue - State: closed - Opened by wdecoster over 3 years ago - 1 comment

#89 - expand slivar tsv to work with groups

Issue - State: open - Opened by brentp over 3 years ago - 4 comments

#89 - expand slivar tsv to work with groups

Issue - State: open - Opened by brentp over 3 years ago - 4 comments

#88 - Using groups with multiple samples results in error

Issue - State: closed - Opened by edg1983 over 3 years ago - 5 comments

#87 - Errors with rare variant expression

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 21 comments

#87 - Errors with rare variant expression

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 21 comments

#86 - gnotate inconsistent zip (on large files)

Issue - State: open - Opened by fcliquet over 3 years ago - 6 comments

#86 - gnotate inconsistent zip (on large files)

Issue - State: open - Opened by fcliquet over 3 years ago - 6 comments

#85 - Errors reported by slivar and no variants

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 1 comment

#85 - Errors reported by slivar and no variants

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 1 comment

#84 - Merging vcfs to use with slivar

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 16 comments

#84 - Merging vcfs to use with slivar

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 16 comments

#83 - AD: int32 required to use this tool

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 1 comment

#83 - AD: int32 required to use this tool

Issue - State: closed - Opened by sprakashUTH over 3 years ago - 1 comment

#82 - group expr results

Issue - State: open - Opened by snashraf over 3 years ago - 2 comments

#81 - [slivar] warning and confusing results

Issue - State: closed - Opened by lconde-ucl over 3 years ago - 3 comments

#80 - multiplex pedigrees

Issue - State: closed - Opened by atimms almost 4 years ago - 14 comments

#80 - multiplex pedigrees

Issue - State: closed - Opened by atimms almost 4 years ago - 14 comments

#79 - compound het variants on non trios

Issue - State: closed - Opened by atimms almost 4 years ago - 12 comments

#79 - compound het variants on non trios

Issue - State: closed - Opened by atimms almost 4 years ago - 12 comments

#78 - Empty genotype and depth values in slivar tsv

Issue - State: closed - Opened by amwenger almost 4 years ago - 3 comments

#77 - make-gnotate problems

Issue - State: open - Opened by mvelinder almost 4 years ago - 1 comment

#76 - group alias description for multiple alleles

Issue - State: open - Opened by vdejager about 4 years ago - 8 comments

#76 - group alias description for multiple alleles

Issue - State: open - Opened by vdejager about 4 years ago - 8 comments

#75 - Add slivar-functions.js to docker image

Issue - State: closed - Opened by srynobio about 4 years ago - 1 comment

#75 - Add slivar-functions.js to docker image

Issue - State: closed - Opened by srynobio about 4 years ago - 1 comment

#74 - How to handle with missing field?

Issue - State: closed - Opened by liserjrqlxue about 4 years ago - 13 comments

#74 - How to handle with missing field?

Issue - State: closed - Opened by liserjrqlxue about 4 years ago - 13 comments

#73 - pslivar through bioconda

Issue - State: closed - Opened by williamrowell about 4 years ago - 3 comments

#73 - pslivar through bioconda

Issue - State: closed - Opened by williamrowell about 4 years ago - 3 comments

#72 - Rare disease example link (not big issue), gnomad v3

Issue - State: closed - Opened by Phillip-a-richmond about 4 years ago - 1 comment

#71 - `SIGILL: Illegal operation` for `compound-hets` with phased input

Issue - State: closed - Opened by williamrowell about 4 years ago - 1 comment

#71 - `SIGILL: Illegal operation` for `compound-hets` with phased input

Issue - State: closed - Opened by williamrowell about 4 years ago - 1 comment

#70 - Using slivar for structural variants

Issue - State: closed - Opened by Hywel-W about 4 years ago - 4 comments

#70 - Using slivar for structural variants

Issue - State: closed - Opened by Hywel-W about 4 years ago - 4 comments

#69 - make-gnotate dbSNP change `RS` from `Integer` to `Float`

Issue - State: open - Opened by liserjrqlxue about 4 years ago - 10 comments

#69 - make-gnotate dbSNP change `RS` from `Integer` to `Float`

Issue - State: open - Opened by liserjrqlxue about 4 years ago - 10 comments

#68 - how does decompose and normalize affect gnotate

Issue - State: closed - Opened by liserjrqlxue about 4 years ago - 3 comments

#68 - how does decompose and normalize affect gnotate

Issue - State: closed - Opened by liserjrqlxue about 4 years ago - 3 comments

#67 - Family Expression Errors

Issue - State: closed - Opened by Roj4ck about 4 years ago - 4 comments

#67 - Family Expression Errors

Issue - State: closed - Opened by Roj4ck about 4 years ago - 4 comments

#66 - Low complexity region bed file?

Issue - State: closed - Opened by jpdna about 4 years ago - 1 comment

#66 - Low complexity region bed file?

Issue - State: closed - Opened by jpdna about 4 years ago - 1 comment

#65 - `--expr` option for `make-gnotate`

Issue - State: closed - Opened by williamrowell about 4 years ago - 2 comments

#65 - `--expr` option for `make-gnotate`

Issue - State: closed - Opened by williamrowell about 4 years ago - 2 comments

#63 - How to ignore missing field?

Issue - State: closed - Opened by weizhu365 over 4 years ago - 2 comments

#62 - make-gnotate

Issue - State: closed - Opened by josephhalstead over 4 years ago - 1 comment

#62 - make-gnotate

Issue - State: closed - Opened by josephhalstead over 4 years ago - 1 comment

#61 - Suppress PED Samples Dump

Issue - State: closed - Opened by bioinformike over 4 years ago - 2 comments

#61 - Suppress PED Samples Dump

Issue - State: closed - Opened by bioinformike over 4 years ago - 2 comments

#60 - Slivar rare disease best practices

Issue - State: open - Opened by syouligan over 4 years ago - 8 comments

#60 - Slivar rare disease best practices

Issue - State: open - Opened by syouligan over 4 years ago - 8 comments

#59 - Removing gnomad AC0 flag variants

Issue - State: closed - Opened by syouligan over 4 years ago - 4 comments

#59 - Removing gnomad AC0 flag variants

Issue - State: closed - Opened by syouligan over 4 years ago - 4 comments

#58 - Provide warning/notification if 0 is in affected_status column of ped

Issue - State: open - Opened by mvelinder over 4 years ago - 2 comments

#58 - Provide warning/notification if 0 is in affected_status column of ped

Issue - State: open - Opened by mvelinder over 4 years ago - 2 comments

#57 - multiple SNP in non-coding regions

Issue - State: open - Opened by stefanucci-luca over 4 years ago - 1 comment

#57 - multiple SNP in non-coding regions

Issue - State: open - Opened by stefanucci-luca over 4 years ago - 1 comment

#56 - slivar rare-disease

Issue - State: open - Opened by brentp over 4 years ago - 2 comments

#55 - vcf.nim(911) error for some genotypes

Issue - State: closed - Opened by mark-welsh over 4 years ago - 6 comments

#54 - make-gnotate issue when specifying multiple vcf/bcfs

Issue - State: open - Opened by cvlvxi over 4 years ago - 2 comments

#53 - Feature Request: Linkage analysis?

Issue - State: open - Opened by nroak over 4 years ago - 1 comment

#52 - Updates ddc

Pull Request - State: closed - Opened by brwnj almost 5 years ago

#51 - moves expression text and adds copy

Pull Request - State: closed - Opened by brwnj almost 5 years ago

#50 - Update ddc

Pull Request - State: closed - Opened by brwnj almost 5 years ago

#49 - Support for annotations in table format

Issue - State: closed - Opened by edg1983 almost 5 years ago - 1 comment

#48 - updates html, style, and js for ddc

Pull Request - State: closed - Opened by brwnj almost 5 years ago

#47 - segregating compound het function

Issue - State: open - Opened by mvelinder almost 5 years ago

#46 - broken gnomad zip for for genomes.v3.hg38

Issue - State: closed - Opened by brentp almost 5 years ago

#45 - gnomAD v3 hg38 file

Issue - State: closed - Opened by nroak about 5 years ago - 2 comments

#44 - make-gnotate

Issue - State: closed - Opened by jeffverboon about 5 years ago - 9 comments

#44 - make-gnotate

Issue - State: closed - Opened by jeffverboon about 5 years ago - 9 comments

#43 - SV filtering

Issue - State: closed - Opened by erampersaud about 5 years ago - 8 comments

#43 - SV filtering

Issue - State: closed - Opened by erampersaud about 5 years ago - 8 comments

#42 - gnomAD frequencies different from website

Issue - State: closed - Opened by mvelinder about 5 years ago - 1 comment

#42 - gnomAD frequencies different from website

Issue - State: closed - Opened by mvelinder about 5 years ago - 1 comment

#41 - ENH: add support for annovar annotations

Issue - State: open - Opened by nroak about 5 years ago - 6 comments

#40 - Update default-order.txt

Pull Request - State: closed - Opened by jxchong over 5 years ago - 1 comment

#39 - support for family expressions

Issue - State: closed - Opened by brentp over 5 years ago - 40 comments

#38 - Re: multi-generational pedigree

Issue - State: closed - Opened by asapb over 5 years ago - 7 comments

#38 - Re: multi-generational pedigree

Issue - State: closed - Opened by asapb over 5 years ago - 7 comments

#37 - Comparing genotypes

Issue - State: closed - Opened by JakeHagen over 5 years ago - 8 comments

#36 - use RankSum's for filtering

Issue - State: closed - Opened by brentp over 5 years ago - 6 comments