Commits

Breadcrumbs

History for

ongene_table_fix

User selector

All users

All time

Commit History

Commits on Jan 23, 2019

• Fix to use GRCh37 in Ensembl biomart instead of the default GRCh38

  pfpjs

  committed
  c0ae8ce

  Copy full SHA for c0ae8ce

• Update detailed_gene and summary_gene tables filename

  pfpjs

  committed
  6cdba06

  Copy full SHA for 6cdba06

• Fix, update and automate generation of detailed_gene and summary_gene tables.

  pfpjs

  committed
  c1923e2

  Copy full SHA for c1923e2

Commits on Jan 22, 2019

• set version for imminent release

  brentp

  committed
  c145bf6

  Copy full SHA for c145bf6

• remove stale tests

  brentp

  committed
  77b3c11

  Copy full SHA for 77b3c11

Commits on Jan 17, 2019

• update to cadd v1.4

  brentp

  committed
  0f70f2a

  Copy full SHA for 0f70f2a

• update to dbsnp 151. see #912

  brentp

  committed
  2c16ae3

  Copy full SHA for 2c16ae3

Commits on Jan 16, 2019

• add gnomad non_cancer_AF

  brentp

  committed
  8bd5672

  Copy full SHA for 8bd5672

• set compound-het priority to be float

  Show description for d2acd1f
  brentp

  committed
  d2acd1f

  Copy full SHA for d2acd1f

• update and make dbsnp smaller

  brentp

  committed
  232a87f

  Copy full SHA for 232a87f

Commits on Jan 15, 2019

• add allele frequency for gnomad controls and non_neuro

  Show description for 513f53f
  brentp

  committed
  513f53f

  Copy full SHA for 513f53f

• update gnomad to r2.1

  Show description for 31ab2a9
  brentp

  committed
  31ab2a9

  Copy full SHA for 31ab2a9

Commits on Jan 14, 2019

• update clinvar. see #912

  brentp

  committed
  f54be23

  Copy full SHA for f54be23

• update dgidb_url

  Show description for d313647
  brentp

  committed
  d313647

  Copy full SHA for d313647

Commits on Dec 13, 2018

• update clinvar script

  brentp

  committed
  e73eec2

  Copy full SHA for e73eec2

Commits on Aug 13, 2018

• update gnomad to 2.0.2 and decompose with new vt

  Show description for cb7dffd
  brentp

  committed
  cb7dffd

  Copy full SHA for cb7dffd

Commits on Feb 15, 2018

• normalize vep names. closes #887

  brentp

  committed
  cc3563f

  Copy full SHA for cc3563f

Commits on Nov 9, 2017

• test for write access before amend and annotation_provenance

  Show description for ae9710c
  brentp

  committed
  ae9710c

  Copy full SHA for ae9710c

• browser: emtpy gt_filter is set to None

  brentp

  committed
  d138fc9

  Copy full SHA for d138fc9

Commits on Sep 28, 2017

• fix unicode errors on load and on gemini annotate

  brentp

  committed
  6db210b

  Copy full SHA for 6db210b

Commits on Sep 19, 2017

• fix loading for ipython multicore if vcf is not in pwd

  brentp

  committed
  167e3a0

  Copy full SHA for 167e3a0

Commits on Jul 22, 2017

• allow showing per-sample gt stuff in genewise

  brentp

  committed
  fb7e845

  Copy full SHA for fb7e845

Commits on Jul 21, 2017

• fix genewise again

  brentp

  committed
  51eb9a7

  Copy full SHA for 51eb9a7

• re-fix genewise

  brentp

  committed
  5baf62d

  Copy full SHA for 5baf62d

• fix bug reported by @jxchong

  brentp

  committed
  efc5809

  Copy full SHA for efc5809

Commits on Jul 19, 2017

• Merge branch 'master' of https://github.com/arq5x/gemini into gnomad-up

  brentp

  committed
  4302958

  Copy full SHA for 4302958

• update history and install-data for newest gnomad

  brentp

  committed
  8855a97

  Copy full SHA for 8855a97

Commits on Jul 18, 2017

• Merge pull request #856 from mbootwalla/gnomad_fix

  Show description for 91555ac
  brentp

  authored
  91555ac

  Copy full SHA for 91555ac

• genewise: only show variants that meet the require number of optional filters

  Show description for 21e26fe
  brentp

  committed
  21e26fe

  Copy full SHA for 21e26fe

Commits on Jul 17, 2017

• Added a fix to make-gnomad.sh perl regex to avoid removing AF column from INFO field of multi-allelic sites in gnomad exomes vcf

  

  Moiz Bootwalla

  committed
  546df28

  Copy full SHA for 546df28

Commits on Jun 9, 2017

• Install: ensure conda-forge in conda channels

  Show description for 3744ec1
  chapmanb

  committed
  3744ec1

  Copy full SHA for 3744ec1

Commits on May 29, 2017

• Install: avoid certificate issues on AWS downloads

  Show description for 472348b
  chapmanb

  committed
  472348b

  Copy full SHA for 472348b

Commits on May 20, 2017

• Avoid checking Miniconda certificate. Fixes #845

  chapmanb

  committed
  bbea6b6

  Copy full SHA for bbea6b6

Commits on May 2, 2017

• allow specifying gene selection in comp-het tool

  Show description for 8d5db9d
  brentp

  committed
  8d5db9d

  Copy full SHA for 8d5db9d

• allow specify gt_type in gt-filter.

  Show description for 5f2e633
  brentp

  committed
  5f2e633

  Copy full SHA for 5f2e633