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Mouse Genome Support #52

Merged
merged 36 commits into from
Nov 4, 2019
Merged

Mouse Genome Support #52

merged 36 commits into from
Nov 4, 2019

Commits on May 9, 2019

  1. Get base requirements set up

    @apeltzer
    apeltzer committed May 9, 2019
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Commits on Sep 6, 2019

  1. Merge remote-tracking branch 'upstream/dev' into dev

    @apeltzer
    apeltzer committed Sep 6, 2019
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Commits on Oct 21, 2019

  1. Merge remote-tracking branch 'upstream/dev' into dev

    @apeltzer
    apeltzer committed Oct 21, 2019
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  2. Start adding mouse data

    @apeltzer
    apeltzer committed Oct 21, 2019
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  3. Update iGenomes.config

    @apeltzer
    apeltzer committed Oct 21, 2019
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  4. Add tbi

    @apeltzer
    apeltzer committed Oct 21, 2019
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  5. Drop ASCAT files

    @apeltzer
    apeltzer committed Oct 21, 2019
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Commits on Oct 28, 2019

  1. Use Version 98 of Mouse

    @apeltzer
    apeltzer committed Oct 28, 2019
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  2. Add for grcm38

    @apeltzer
    apeltzer committed Oct 28, 2019
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  3. Adjust mus musculus DB

    @apeltzer
    apeltzer committed Oct 28, 2019
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  4. Annotation

    @apeltzer
    apeltzer committed Oct 28, 2019
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Commits on Oct 30, 2019

  1. Adjusted genomes.config

    @apeltzer
    apeltzer committed Oct 30, 2019
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  2. Should be list

    @apeltzer
    apeltzer committed Oct 30, 2019
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  3. Set genomes_base to something

    @apeltzer
    apeltzer committed Oct 30, 2019
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  4. Revert back

    @apeltzer
    apeltzer committed Oct 30, 2019
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  5. Add proper calling list

    @apeltzer
    apeltzer committed Oct 30, 2019
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  6. Use the bed file

    @apeltzer
    apeltzer committed Oct 30, 2019
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  7. Fix genome fa.fai

    @apeltzer
    apeltzer committed Oct 30, 2019
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  8. Add in mgpv5

    @apeltzer
    apeltzer committed Oct 30, 2019
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Commits on Oct 31, 2019

  1. Try short track

    @apeltzer
    apeltzer committed Oct 31, 2019
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  2. Add in species handling

    @apeltzer
    apeltzer committed Oct 31, 2019
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  3. Document new parameter species

    @apeltzer
    apeltzer committed Oct 31, 2019
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  4. Add changelog

    @apeltzer
    apeltzer committed Oct 31, 2019
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  5. Fix iGenomes stuff

    @apeltzer
    apeltzer committed Oct 31, 2019
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  6. Add in note about GRCm38

    @apeltzer
    apeltzer committed Oct 31, 2019
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  7. Merge branch 'dev' into dev

    @maxulysse
    maxulysse authored Oct 31, 2019
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  8. Fix small fai index issue

    @apeltzer
    apeltzer committed Oct 31, 2019
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  9. Merge branch 'dev' of https://github.com/apeltzer/sarek into dev

    @apeltzer
    apeltzer committed Oct 31, 2019
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  10. Adjusted quotes in genomes.config

    @apeltzer
    apeltzer committed Oct 31, 2019
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  11. And the same for igenomes

    @apeltzer
    apeltzer committed Oct 31, 2019
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  12. Better folder structure for Mouse Genome Project data

    @apeltzer
    apeltzer committed Oct 31, 2019
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  13. Minor adjustment to propoer paths

    @apeltzer
    apeltzer committed Oct 31, 2019
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  14. Apply suggestions from code review 

    Add changes by Maxime

Co-Authored-By: Maxime Garcia <max.u.garcia@gmail.com>
    @apeltzer @maxulysse
    apeltzer and maxulysse authored Oct 31, 2019
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  15. Remove space

    @apeltzer
    apeltzer committed Oct 31, 2019
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  16. Move it up

    @apeltzer
    apeltzer committed Oct 31, 2019
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  17. Update CHANGELOG.md 

    Co-Authored-By: Maxime Garcia <max.u.garcia@gmail.com>
    @apeltzer @maxulysse
    apeltzer and maxulysse authored Oct 31, 2019
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