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base repository: VanLoo-lab/ascat
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base: master
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head repository: VanLoo-lab/ascat
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compare: dev
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  • 20 commits
  • 5 files changed
  • 6 contributors

Commits on Sep 16, 2018

  1. Merge pull request #1 from Crick-CancerGenomics/master 

    Sync fork with upstream
    @jdemeul
    jdemeul authored Sep 16, 2018
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Commits on Sep 17, 2018

  1. include optional replic timing correction

    @jdemeul
    jdemeul committed Sep 17, 2018
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  2. Merge pull request #30 from jdemeul/replic_timing 

    Enhanced wave correction
    @haasek
    haasek authored Sep 17, 2018
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  3. Provide how to for generating own replication timing input files

    @jdemeul
    jdemeul committed Sep 17, 2018
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  4. add omitted file

    @jdemeul
    jdemeul committed Sep 17, 2018
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  5. Delete metadata file

    @jdemeul
    jdemeul authored Sep 17, 2018
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Commits on Jan 14, 2019

  1. set default penalty to 70

    @haasek
    haasek committed Jan 14, 2019
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Commits on Jan 21, 2019

  1. Merge pull request #31 from jdemeul/replic_timing 

    Provide how to for generating own replication timing input files
    @haasek
    haasek authored Jan 21, 2019
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Commits on Jan 22, 2019

  1. minor changes

    @haasek
    haasek committed Jan 22, 2019
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  2. changed penalty parameter back to 70

    @haasek
    haasek committed Jan 22, 2019
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  3. fixed GC regex

    @haasek
    haasek committed Jan 22, 2019
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Commits on Oct 11, 2019

  1. Added flags to restrict ASCAT ploidy solution search space 

    This change allows to restrict the search space around the expected ploidy. This is useful when the approximate ploidy is known (i.e. 2n, 4n, etc.).
    @elarosecadieux
    elarosecadieux authored Oct 11, 2019
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  2. Merge pull request #50 from elarosecadieux/patch-1 

    Added flags to restrict ASCAT ploidy solution search space
    @haasek
    haasek authored Oct 11, 2019
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Commits on Oct 15, 2019

  1. Fix bug when manual ploidy boundaries fall outside strict ploidy boun… 

    …daries

Ignore strict ploidy solutions when manual min_ploidy and max_ploidy boundaries fall outside builtin strict ploidy boundaries
    @elarosecadieux
    elarosecadieux authored Oct 15, 2019
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Commits on Feb 6, 2020

  1. fixed create_distance_matrix for manual psi boundaries

    @elarosecadieux
    elarosecadieux authored Feb 6, 2020
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Commits on Aug 24, 2021

  1. Fix GC% computation as N were considered and update column names

    @tlesluyes
    tlesluyes committed Aug 24, 2021
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Commits on Nov 25, 2021

  1. Merge pull request #54 from elarosecadieux/patch-3 

    fixed create_distance_matrix for manual psi boundaries
    @tlesluyes
    tlesluyes authored Nov 25, 2021
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  2. Merge pull request #51 from elarosecadieux/patch-2 

    Fix bug when manual ploidy boundaries fall outside strict ploidy boudaries
    @tlesluyes
    tlesluyes authored Nov 25, 2021
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  3. Fix for ascat.plotSunrise with custom boundaries for ploidy

    @tlesluyes
    tlesluyes committed Nov 25, 2021
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  4. Merge pull request #80 from tlesluyes/dev 

    Fix for ascat.plotSunrise with custom boundaries for ploidy
    @tlesluyes
    tlesluyes authored Nov 25, 2021
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