illumina/expansionhunter issues and pull requests

#100 - Looking for a variant catalog for C. elegans

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

#99 - Skip secondary alignments during read recovery

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

#99 - Skip secondary alignments during read recovery

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

#98 - enhance index search

Issue - State: open - Opened by yangmqglobe almost 5 years ago - 1 comment

#98 - enhance index search

Issue - State: open - Opened by yangmqglobe almost 5 years ago - 1 comment

#97 - Request to add SAMD12 (Ishiura et al 2018)

Issue - State: open - Opened by rcb2011 almost 5 years ago - 8 comments
Labels: enhancement

#96 - "Invalid contig name X" using example data

Issue - State: closed - Opened by leekaiinthesky almost 5 years ago - 7 comments

#96 - "Invalid contig name X" using example data

Issue - State: closed - Opened by leekaiinthesky almost 5 years ago - 7 comments

#95 - Request to append the ATTTC expansion in DAB1 to the variant catalog

Issue - State: open - Opened by ghost almost 5 years ago - 2 comments
Labels: enhancement

#95 - Request to append the ATTTC expansion in DAB1 to the variant catalog

Issue - State: open - Opened by ghost almost 5 years ago - 2 comments
Labels: enhancement

#94 - "Encountered empty query"

Issue - State: open - Opened by jwagnerhki almost 5 years ago - 2 comments

#94 - "Encountered empty query"

Issue - State: open - Opened by jwagnerhki almost 5 years ago - 2 comments

#93 - Compilation time error.

Issue - State: open - Opened by as7a5 almost 5 years ago - 1 comment

#93 - Compilation time error.

Issue - State: open - Opened by as7a5 almost 5 years ago - 1 comment

#92 - Skipping low coverage genes

Issue - State: open - Opened by MichelledeGroot almost 5 years ago - 2 comments
Labels: enhancement

#92 - Skipping low coverage genes

Issue - State: open - Opened by MichelledeGroot almost 5 years ago - 2 comments
Labels: enhancement

#91 - update GLS annotation

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

#91 - update GLS annotation

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

#90 - Details on repeat unit of interrupted and alternate alleles

Issue - State: open - Opened by dnil almost 5 years ago - 3 comments
Labels: enhancement

#90 - Details on repeat unit of interrupted and alternate alleles

Issue - State: open - Opened by dnil almost 5 years ago - 3 comments
Labels: enhancement

#89 - Fix #87 - Add PABPN1 to the variant catalog.

Pull Request - State: closed - Opened by dnil almost 5 years ago - 3 comments

#89 - Fix #87 - Add PABPN1 to the variant catalog.

Pull Request - State: closed - Opened by dnil almost 5 years ago - 3 comments

#88 - Fix clang build

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

#88 - Fix clang build

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

#87 - Request to add PABPN1 to variant catalog

Issue - State: closed - Opened by MichelledeGroot almost 5 years ago - 5 comments
Labels: enhancement

#87 - Request to add PABPN1 to variant catalog

Issue - State: closed - Opened by MichelledeGroot almost 5 years ago - 5 comments
Labels: enhancement

#86 - Add paralog workflow [WIP]

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#86 - Add paralog workflow [WIP]

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#85 - Add mapping quality and read position check for CNV

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#85 - Add mapping quality and read position check for CNV

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#84 - Perm improv

Pull Request - State: closed - Opened by yjqiu about 5 years ago

#84 - Perm improv

Pull Request - State: closed - Opened by yjqiu about 5 years ago

#83 - Streamline output

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#83 - Streamline output

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#82 - Simplify read collection

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#82 - Simplify read collection

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#81 - Getting error message

Issue - State: closed - Opened by amrita1983 about 5 years ago - 4 comments

#81 - Getting error message

Issue - State: closed - Opened by amrita1983 about 5 years ago - 4 comments

#80 - Reorganize locus spec handling

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#80 - Reorganize locus spec handling

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#79 - Is it possible to specify the log file?

Issue - State: open - Opened by Oodnadatta about 5 years ago - 1 comment

#79 - Is it possible to specify the log file?

Issue - State: open - Opened by Oodnadatta about 5 years ago - 1 comment

#78 - add four new pathogenic repeats

Pull Request - State: closed - Opened by yjqiu about 5 years ago

#78 - add four new pathogenic repeats

Pull Request - State: closed - Opened by yjqiu about 5 years ago

#77 - Implement depth filter

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#77 - Implement depth filter

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#76 - add four new pathogenic repeats

Pull Request - State: closed - Opened by yjqiu about 5 years ago

#76 - add four new pathogenic repeats

Pull Request - State: closed - Opened by yjqiu about 5 years ago

#75 - Locus spec improvements

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago - 1 comment

#75 - Locus spec improvements

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago - 1 comment

#74 - Introduce alignment stats for graph variants

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#74 - Introduce alignment stats for graph variants

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#73 - Targeted CNV calling workflow [WIP]

Pull Request - State: open - Opened by xiao-chen-xc about 5 years ago

#73 - Targeted CNV calling workflow [WIP]

Pull Request - State: open - Opened by xiao-chen-xc about 5 years ago

#72 - Fix whitespace issues

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#72 - Fix whitespace issues

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#71 - Fix line endings

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#71 - Fix line endings

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#70 - Fix warnings and add .gitattributes

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#69 - Update develop

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#69 - Update develop

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#68 - Locus model

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#68 - Locus model

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#67 - Call final copy number change for CNV

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#67 - Call final copy number change for CNV

Pull Request - State: closed - Opened by xiao-chen-xc about 5 years ago

#66 - Tweak parameter loading

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#66 - Tweak parameter loading

Pull Request - State: closed - Opened by egor-dolzhenko about 5 years ago

#65 - Continue on locus flank error

Pull Request - State: closed - Opened by bjtrost about 5 years ago - 7 comments

#65 - Continue on locus flank error

Pull Request - State: closed - Opened by bjtrost about 5 years ago - 7 comments

#64 - Request to add custom variant catalogue for NIPA1

Issue - State: closed - Opened by melnel000 about 5 years ago - 3 comments
Labels: enhancement

#64 - Request to add custom variant catalogue for NIPA1

Issue - State: closed - Opened by melnel000 about 5 years ago - 3 comments
Labels: enhancement

#63 - Transfer code from internal repository

Pull Request - State: closed - Opened by xiao-chen-xc over 5 years ago

#63 - Transfer code from internal repository

Pull Request - State: closed - Opened by xiao-chen-xc over 5 years ago

#62 - (AAAAG|AAGGG)*

Issue - State: closed - Opened by dnil over 5 years ago - 1 comment

#62 - (AAAAG|AAGGG)*

Issue - State: closed - Opened by dnil over 5 years ago - 1 comment

#61 - Is it possible to identify potential disease-associated STR loci genome-wide using ExpansionHunter?

Issue - State: closed - Opened by YiweiNiu over 5 years ago - 2 comments

#61 - Is it possible to identify potential disease-associated STR loci genome-wide using ExpansionHunter?

Issue - State: closed - Opened by YiweiNiu over 5 years ago - 2 comments

#60 - Install error "[stats/CMakeFiles/stats.dir/all] Error 2"

Issue - State: closed - Opened by YiweiNiu over 5 years ago - 2 comments

#60 - Install error "[stats/CMakeFiles/stats.dir/all] Error 2"

Issue - State: closed - Opened by YiweiNiu over 5 years ago - 2 comments

#59 - Fix a bug in read extraction

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#59 - Fix a bug in read extraction

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#58 - Develop

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#58 - Develop

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#57 - Improve documentation

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#57 - Improve documentation

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#56 - Fix possible compilation error in JSON field extraction

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

#56 - Fix possible compilation error in JSON field extraction

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

#55 - Request: Expose the minimum weighted purity filter value

Issue - State: open - Opened by nh13 over 5 years ago - 1 comment

#54 - Update ParameterLoading.cpp

Pull Request - State: closed - Opened by nh13 over 5 years ago - 3 comments

#54 - Update ParameterLoading.cpp

Pull Request - State: closed - Opened by nh13 over 5 years ago - 3 comments

#53 - Request: Add LocusId to the output VCF output as an INFO field

Issue - State: closed - Opened by nh13 over 5 years ago - 1 comment

#53 - Request: Add LocusId to the output VCF output as an INFO field

Issue - State: closed - Opened by nh13 over 5 years ago - 1 comment

#52 - Make v3.0.0 release

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#52 - Make v3.0.0 release

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#51 - Repeat Expansion for Mutation in FMR1 gene

Issue - State: closed - Opened by amrita1983 over 5 years ago - 5 comments

#51 - Repeat Expansion for Mutation in FMR1 gene

Issue - State: closed - Opened by amrita1983 over 5 years ago - 5 comments

#50 - Transfer code from internal repository

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#50 - Transfer code from internal repository

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#49 - Transfer code from internal repository

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

#49 - Transfer code from internal repository

Pull Request - State: closed - Opened by egor-dolzhenko over 5 years ago

GitHub / illumina/expansionhunter issues and pull requests