Ecosyste.ms: Issues

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

GitHub / iossifovlab/gpf issues and pull requests

#100 - Merge branch 'master' into vcf-parquet-partitioning

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

#99 - Parquet loader

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

#98 - Vcf parquet partitioning

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

#97 - Family allele best state

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

#96 - Config parser work dir change

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

#95 - Speed up unit tests by changing fixture scopes

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

#94 - Config parser property inclusion

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

#93 - Queryview dataset decorator

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

#92 - Logging decorator

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

#91 - Groups API refactor

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

#90 - Update GPFInstance interface to have simplified public API

Issue - State: closed - Opened by iordanivanov about 5 years ago

#89 - Update PhenotypeData hierarchy

Issue - State: closed - Opened by iordanivanov about 5 years ago

#88 - Update GenotypeData hierarchy

Issue - State: closed - Opened by iordanivanov about 5 years ago

#87 - Refactor chromosome file reading with pandas

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

#86 - Stream preview variants

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

#85 - Stream preview variants from wdae

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

#84 - Update gene sets and denovo gene sets interface

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

#83 - Fix wdae permissions

Pull Request - State: closed - Opened by nikolaystanishev about 5 years ago - 3 comments

#82 - Fix wdae permissions

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

#81 - Update gene sets and denovo gene sets interface

Issue - State: closed - Opened by iordanivanov over 5 years ago

#80 - Flexible denovo import

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

#79 - [gs-1.0] simple_study_import.py tool and Impala genotype storage

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

#78 - [gs-1.0] study usage of genotype storage

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

#77 - Genotype storage

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

#76 - [gs-1.0] genotype storage configuration

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

#75 - Fix gene sets download request

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

#74 - Fix gene sets download request

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

#73 - Specify families with full pedigree file

Issue - State: closed - Opened by iordanivanov over 5 years ago

#72 - Make GPF instance lazy

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

#71 - Mock genomesDB with real data

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

#70 - Config parser docs

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

#69 - Write documentation about configuration parsers.

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

#68 - Ref #65 Allow downloading of all pheno instruments

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

#67 - Study configuration documentation

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

#66 - Write configuration documentation for study

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

#65 - Allow downloading of all instruments in phenotype browser

Issue - State: closed - Opened by iordanivanov over 5 years ago

#64 - Use variants/family.py's pedigree loading method in pheno/prepare

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

#63 - Remove unused properties

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

#62 - Write configuration documentation for genotypeBrowser

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

#61 - 60 phenodb empty arguments

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

#60 - Handle empty arguments to PhenoDB literally

Issue - State: closed - Opened by iordanivanov over 5 years ago

#59 - Standardize pedigree file loading

Issue - State: closed - Opened by iordanivanov over 5 years ago

#56 - Pheno regression config validation

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

#54 - Add inheritance type filter

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

#53 - Enrichment testing

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

#52 - Add inheritance type filter

Issue - State: closed - Opened by iordanivanov over 5 years ago

#50 - Ref #49; Moved denied prompt loading to parser

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

#48 - GPF instance python interface

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

#47 - GPF instance python interface

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

#46 - Preview and download columns

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

#45 - Enrichment startup guide

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

#44 - Refactor preview and download columns

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

#43 - Remove helpers and fix download columns

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

#42 - Remove helpers and fix download columns

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

#41 - Configuration value verification

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

#40 - inRoles columns should be configured and added to download columns

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

#39 - Rename common report

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

#37 - Refactor configuration

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

#36 - Configurable permission denied prompt

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

#35 - Configurable permission denied prompt

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

#34 - Some fixes to variants querying

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

#33 - Add enable/disable key to all sections in all configs

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

#32 - Combine studies facade and factory

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

#31 - Refactor configuration

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

#30 - Remove variants db conf from annotation_makefile_generator

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

#29 - Conda installer update

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

#28 - Installer

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

#27 - Refactor all configuration

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

#26 - Split values in big queries

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

#25 - split variant in members where clause

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

#24 - Fix dae2parquet

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

#23 - Fix dae2parquet tool

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

#22 - Bump up dependencies

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

#21 - GPF Jenkins

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

#20 - Add new features to gpf jenkins

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

#19 - Remove reusables dependency

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

#18 - Pheno tool api unit tests

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

#17 - TEST pull request

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

#16 - Restore pheno and pheno browser tests

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

#15 - DAE config default values

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

#14 - bump up versions of project dependencies

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

#13 - Add Impala section to DAE config

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

#12 - Impala parquet loader

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

#11 - Add tool for loading parquet files in impala db

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

#10 - Wdae unit tests

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

#9 - suport for all unknown alleles in impala query variants

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

#8 - review support for return_unknown in impala query_variants

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

#7 - fix tests in wdae/gene_weights

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

#6 - fix wdae unit tests

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

#5 - Data import fixes

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

#4 - Make data-hg19 compatible with impala backend.

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

#3 - Inheritance bitwise

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

#2 - Data import fixes

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

#1 - Make data-hg19-startup compatible with impala backend

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