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This repository has been archived by the owner on Jan 27, 2020. It is now read-only.

Improve VEP #732

Merged
merged 33 commits into from
Feb 27, 2019
Merged

Improve VEP #732

merged 33 commits into from
Feb 27, 2019

Commits on Feb 20, 2019

  1. tabix convert the cache directory

    @maxulysse
    maxulysse committed Feb 20, 2019
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  2. remove --database and --offline option from VEP

    @maxulysse
    maxulysse committed Feb 20, 2019
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  3. fix tabix indexation

    @maxulysse
    maxulysse committed Feb 20, 2019
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Commits on Feb 21, 2019

  1. merge scripts

    @maxulysse
    maxulysse committed Feb 21, 2019
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  2. update docs

    @maxulysse
    maxulysse committed Feb 21, 2019
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  3. update DockerFile

    @maxulysse
    maxulysse committed Feb 21, 2019
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  4. add usage of CADD plugin

    @maxulysse
    maxulysse committed Feb 21, 2019
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  5. add cadd_cache as an autorized params

    @maxulysse
    maxulysse committed Feb 21, 2019
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  6. fix CADD download

    @maxulysse
    maxulysse committed Feb 21, 2019
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  7. fix containers build

    @maxulysse
    maxulysse committed Feb 21, 2019
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  8. code polishing

    @maxulysse
    maxulysse committed Feb 21, 2019
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  9. add container for DonwloadCADD

    @maxulysse
    maxulysse committed Feb 21, 2019
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  10. typo

    @maxulysse
    maxulysse committed Feb 21, 2019
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  11. add cadd_version as authorized params

    @maxulysse
    maxulysse committed Feb 21, 2019
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  12. code polishing

    @maxulysse
    maxulysse committed Feb 21, 2019
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  13. fix tabix

    @maxulysse
    maxulysse committed Feb 21, 2019
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Commits on Feb 22, 2019

  1. update VEP

    @maxulysse
    maxulysse committed Feb 22, 2019
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  2. code polishing

    @maxulysse
    maxulysse committed Feb 22, 2019
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  3. fix path to VEP cache

    @maxulysse
    maxulysse committed Feb 22, 2019
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  4. update help

    @maxulysse
    maxulysse committed Feb 22, 2019
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  5. use VEP script to download cache

    @maxulysse
    maxulysse committed Feb 22, 2019
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Commits on Feb 25, 2019

  1. fix output directory

    @maxulysse
    maxulysse committed Feb 25, 2019
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  2. put --offline back

    @maxulysse
    maxulysse committed Feb 25, 2019
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  3. use only 4 cpus for VEP

    @maxulysse
    maxulysse committed Feb 25, 2019
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  4. include fasta ref for HGVS

    @maxulysse
    maxulysse committed Feb 25, 2019
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  5. Tabix index via VEP install script

    @maxulysse
    maxulysse committed Feb 25, 2019
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Commits on Feb 26, 2019

  1. add path to CADD files

    @maxulysse
    maxulysse committed Feb 26, 2019
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  2. add authorized params

    @maxulysse
    maxulysse committed Feb 26, 2019
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  3. add docs about CADD VEP plugin usage [skip ci]

    @maxulysse
    maxulysse committed Feb 26, 2019
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  4. update docs [skip ci]

    @maxulysse
    maxulysse committed Feb 26, 2019
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  5. don't add fasta on containers

    @maxulysse
    maxulysse committed Feb 26, 2019
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Commits on Feb 27, 2019

  1. Merge branch 'dev' into VEP

    @maxulysse
    maxulysse authored Feb 27, 2019
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  2. Merge branch 'dev' into VEP

    @maxulysse
    maxulysse authored Feb 27, 2019
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