Ecosyste.ms: Issues

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

GitHub / clinical-genomics/mip issues and pull requests

#2072 - `genmod` `--whole-gene` deprecated

Issue - State: open - Opened by dnil 3 months ago

#2071 - Variant not called in MIP-analysis

Issue - State: closed - Opened by AnnHam 9 months ago - 8 comments
Labels: Bug

#2070 - Release branch back into dev

Pull Request - State: closed - Opened by jemten 11 months ago

#2069 - Release/12.1.0

Pull Request - State: closed - Opened by jemten 12 months ago

#2068 - Fail analysis for mismatch gender

Issue - State: closed - Opened by jemten 12 months ago

#2067 - loqus and clinvar update

Pull Request - State: closed - Opened by jemten 12 months ago

#2066 - adds automatic ped_check fail

Pull Request - State: closed - Opened by jemten 12 months ago - 2 comments

#2065 - Fastp

Pull Request - State: closed - Opened by jemten 12 months ago - 1 comment

#2064 - Merge release/12.0.3 into dev

Pull Request - State: closed - Opened by jemten about 1 year ago - 1 comment

#2063 - Release/12.0.3

Pull Request - State: closed - Opened by jemten about 1 year ago

#2062 - PEX6 managed 3'-variant not shown

Issue - State: open - Opened by MUebe over 1 year ago - 15 comments

#2061 - merge release 12.0.2 into develop

Pull Request - State: closed - Opened by jemten over 1 year ago

#2060 - fixes #2057

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2059 - Fail analysis on error in Peddy

Issue - State: closed - Opened by moahaegglund over 1 year ago - 4 comments

#2058 - Request to update initiation maps

Issue - State: closed - Opened by moahaegglund over 1 year ago - 1 comment

#2057 - Relation_check not working

Issue - State: closed - Opened by moahaegglund over 1 year ago - 1 comment
Labels: Urgency L

#2056 - Release/12.0.1

Pull Request - State: closed - Opened by jemten over 1 year ago

#2055 - Normalized rank score validation

Issue - State: closed - Opened by torbjorgen over 1 year ago - 3 comments

#2054 - Release/12.0.1

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2053 - Improper pair eval

Pull Request - State: closed - Opened by jemten over 1 year ago

#2052 - Log and evaluate PCT_PF_READS_IMPROPER_PAIRS

Issue - State: closed - Opened by jemten over 1 year ago - 1 comment

#2050 - Update CODEOWNERS

Pull Request - State: closed - Opened by pbiology over 1 year ago

#2048 - Release/12.0.0

Pull Request - State: closed - Opened by jemten over 1 year ago

#2047 - Show local variant archive date also on SV pages

Issue - State: open - Opened by dnil over 1 year ago - 5 comments

#2046 - Simple (GenMod) rank for MEI

Issue - State: open - Opened by dnil over 1 year ago

#2045 - Not called deletion in mtDNA

Issue - State: open - Opened by 1ctw over 1 year ago - 5 comments

#2044 - Most severe consequence for MEI

Issue - State: open - Opened by dnil over 1 year ago

#2043 - Release/12.0.0

Pull Request - State: closed - Opened by jemten over 1 year ago

#2042 - uppdates clinvar references

Pull Request - State: closed - Opened by jemten over 1 year ago

#2041 - increasing max retroseq run time to 15 h

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2040 - Release/11.2.2

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2039 - patching gens_preproc

Pull Request - State: closed - Opened by jemten over 1 year ago

#2038 - Sv updates

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2037 - Release/11.2.1

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2036 - patching gens pre-processing script

Pull Request - State: closed - Opened by jemten over 1 year ago

#2035 - merge Release/11.2.0 into develop

Pull Request - State: closed - Opened by jemten over 1 year ago - 1 comment

#2034 - updating expansionhunter database

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2033 - Release/11.2.0

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2032 - Me filter

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2031 - most severe consequence polypyrimidine stretch

Issue - State: open - Opened by dnil almost 2 years ago - 8 comments

#2030 - removed me exon annotation

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2029 - Vep me 2

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2028 - Vep me

Pull Request - State: closed - Opened by jemten almost 2 years ago - 3 comments

#2027 - Missing or interrupted b-allele tracks for Gens

Issue - State: closed - Opened by dnil almost 2 years ago - 10 comments
Labels: Bug

#2026 - Annotate me

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2025 - merge mobile element vcfs

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2024 - prepare bam files for retroseq

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2023 - adding retroseq

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2022 - Release/11.1.3

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2021 - Explanation called SNV - but not seen in IGV???

Issue - State: closed - Opened by KickiLagerstedt almost 2 years ago - 13 comments

#2020 - Release/11.1.3

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2019 - Release/11.2.0

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2018 - Adds index path to Gens deliverables

Pull Request - State: closed - Opened by raysloks almost 2 years ago - 1 comment

#2017 - release 11.1.2

Pull Request - State: closed - Opened by jemten almost 2 years ago

#2016 - Mitodel problem when loading a case

Issue - State: closed - Opened by northwestwitch almost 2 years ago - 11 comments

#2015 - Not called mtDNA variants

Issue - State: closed - Opened by 1ctw almost 2 years ago - 4 comments

#2014 - Release/11.2.0

Pull Request - State: closed - Opened by jemten about 2 years ago - 1 comment

#2013 - remove rseqc read duplication analysis

Pull Request - State: closed - Opened by jemten about 2 years ago

#2012 - updates megafusion

Pull Request - State: closed - Opened by jemten about 2 years ago

#2011 - increase mem for picardtools mergesamfiles

Pull Request - State: closed - Opened by jemten about 2 years ago

#2010 - bump memory for salmon quant

Pull Request - State: closed - Opened by jemten about 2 years ago

#2009 - updates variant catalog for expansionhunter

Pull Request - State: closed - Opened by jemten about 2 years ago

#2008 - updates tiddit

Pull Request - State: closed - Opened by jemten about 2 years ago - 1 comment

#2007 - Master

Pull Request - State: closed - Opened by jemten about 2 years ago

#2006 - updates chromograph

Pull Request - State: closed - Opened by jemten about 2 years ago - 1 comment

#2005 - Release/mip11.1

Pull Request - State: closed - Opened by jemten about 2 years ago - 1 comment

#2004 - Release/11.0.3

Pull Request - State: closed - Opened by jemten about 2 years ago

#2003 - initiate conda

Pull Request - State: closed - Opened by jemten about 2 years ago - 5 comments

#2002 - Release/mip11.1

Pull Request - State: closed - Opened by jemten over 2 years ago

#2001 - Mip11.0.2

Pull Request - State: closed - Opened by jemten over 2 years ago

#2000 - updates chromograph to version 1.1.5

Pull Request - State: closed - Opened by jemten over 2 years ago - 5 comments

#1999 - Fixes before mip11.1

Pull Request - State: closed - Opened by jemten over 2 years ago - 1 comment

#1998 - Update databases

Pull Request - State: closed - Opened by jemten over 2 years ago

#1997 - defining TEST_REFERENCES

Issue - State: closed - Opened by nitzankol over 2 years ago - 9 comments

#1996 - updating programs

Pull Request - State: closed - Opened by jemten over 2 years ago

#1995 - Wrong MITOMAP associated disease?

Issue - State: closed - Opened by 1ctw over 2 years ago - 10 comments

#1994 - specifing new target bed

Issue - State: closed - Opened by nitzankol over 2 years ago - 3 comments

#1993 - Updates gens_preproc to version 1.0.2

Pull Request - State: closed - Opened by raysloks over 2 years ago

#1992 - Feature/gens preproc container fix

Pull Request - State: closed - Opened by raysloks over 2 years ago

#1991 - update svdb

Pull Request - State: closed - Opened by jemten over 2 years ago

#1990 - updates expansionhunter and saves output

Pull Request - State: closed - Opened by jemten over 2 years ago - 1 comment

#1989 - runs upd and chromograph on unaffected children

Pull Request - State: closed - Opened by jemten over 2 years ago

#1988 - Update software

Issue - State: closed - Opened by jemten over 2 years ago

#1987 - Update databases

Issue - State: closed - Opened by jemten over 2 years ago

#1986 - Release/11.0.1

Pull Request - State: closed - Opened by jemten over 2 years ago

#1985 - Release/11.0.1

Pull Request - State: closed - Opened by jemten over 2 years ago

#1984 - Release/11.0.0

Pull Request - State: closed - Opened by jemten over 2 years ago

#1983 - UPD checks also on unaffected sibs

Issue - State: closed - Opened by dnil almost 3 years ago - 2 comments

#1982 - Tagging ExHu files for export to HK and Scout reviewer service

Issue - State: closed - Opened by dnil almost 3 years ago - 2 comments

#1981 - REVEL rankscores are annotated instead of REVEL scores

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

#1977 - WES SVs default to "all callers" - MIP tag interaction issue?

Issue - State: closed - Opened by dnil almost 3 years ago - 9 comments
Labels: Bug

#1970 - Gens preprocessing

Issue - State: closed - Opened by raysloks about 3 years ago - 5 comments
Labels: Question

#1968 - Request for new bcf output file

Issue - State: closed - Opened by Mropat about 3 years ago - 6 comments
Labels: Discuss

#1967 - Release/11.0.0

Pull Request - State: closed - Opened by jemten over 3 years ago - 2 comments

#1966 - Feature/fixing test coverage

Pull Request - State: closed - Opened by jemten over 3 years ago

#1904 - Missing calls from CNVnator, but older MIP version..

Issue - State: closed - Opened by dnil over 3 years ago - 3 comments
Labels: Discuss

#1708 - feat(bwa-mem2): update to version 2.1

Pull Request - State: closed - Opened by jemten over 4 years ago - 3 comments

#581 - SV annotation - merge order looses some translocation annotation

Issue - State: open - Opened by dnil over 6 years ago - 4 comments
Labels: Discuss

#100 - Deprecate Cosmid

Issue - State: closed - Opened by robinandeer almost 9 years ago - 2 comments