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Version 1.0 #94

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Commits on Jan 23, 2019

  1. Update parameter names in create_gtf.config

    @renewiegandt
    renewiegandt committed Jan 23, 2019
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  2. Update parameter names in footprint_extraction.config

    @renewiegandt
    renewiegandt committed Jan 23, 2019
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  3. Update parameter names in moitif_estimation.config

    @renewiegandt
    renewiegandt committed Jan 23, 2019
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  4. pipeline.nf: Added check for unknown parameters; update parameter nam… 

    …es; if compareBed.sh is not executable chmod +x is called
    @renewiegandt
    renewiegandt committed Jan 23, 2019
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  5. Removed debugging code

    @renewiegandt
    renewiegandt committed Jan 23, 2019
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  6. Merge pull request #91 from loosolab/estimation_motifs 

    Estimation motifs
    @renewiegandt
    renewiegandt committed Jan 23, 2019
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Commits on Jan 28, 2019

  1. get_motif_seq.R: Removed redundant code

    @renewiegandt
    renewiegandt committed Jan 28, 2019
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  2. Rename get_motif_seq.R

    @renewiegandt
    renewiegandt committed Jan 28, 2019
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  3. pipeline.nf: changed output dir of logs

    @renewiegandt
    renewiegandt committed Jan 28, 2019
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  4. compareBed.sh: rename stats to log

    @renewiegandt
    renewiegandt committed Jan 28, 2019
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Commits on Feb 4, 2019

  1. Added venn.R to 3.2_evaluation

    @renewiegandt
    renewiegandt committed Feb 4, 2019
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  2. Update uropa.config

    @renewiegandt
    renewiegandt committed Feb 4, 2019
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  3. Added uropa to the enviroment yaml

    @renewiegandt
    renewiegandt committed Feb 4, 2019
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  4. Added uropa and venn process; mergeing gtf files; added parameter for… 

    … second gtf file
    @renewiegandt
    renewiegandt committed Feb 4, 2019
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Commits on Feb 11, 2019

  1. Added yaml-file for meme-suite enviroment

    @renewiegandt
    renewiegandt committed Feb 11, 2019
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  2. Added meme_env parameter

    @renewiegandt
    renewiegandt committed Feb 11, 2019
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  3. Fixed channel for venn; added conda meme-env

    @renewiegandt
    renewiegandt committed Feb 11, 2019
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  4. added parameter gap penalty to 2.2config

    @renewiegandt
    renewiegandt committed Feb 11, 2019
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  5. merge_similar_clusters.R: bugfix

    @renewiegandt
    renewiegandt committed Feb 11, 2019
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  6. fixed label_cluster; minor changes

    @renewiegandt
    renewiegandt committed Feb 11, 2019
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Commits on Mar 4, 2019

  1. merge_similar_clusters: bugfix; improved cluster plot

    @renewiegandt
    renewiegandt committed Mar 4, 2019
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  2. pipeline: added uropa summary to output

    @renewiegandt
    renewiegandt committed Mar 4, 2019
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  3. merge_similar_clusters: fixed filenames

    @renewiegandt
    renewiegandt committed Mar 4, 2019
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  4. pipeline: Added seed for glam2

    @renewiegandt
    renewiegandt committed Mar 4, 2019
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Commits on Mar 20, 2019

  1. Added skript png_to_pdf

    @renewiegandt
    renewiegandt committed Mar 20, 2019
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  2. Better output directory names

    @renewiegandt
    renewiegandt committed Mar 20, 2019
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  3. Minor formating changes of output file

    @renewiegandt
    renewiegandt committed Mar 20, 2019
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Commits on Mar 26, 2019

  1. Update parameters in README

    @renewiegandt
    renewiegandt committed Mar 26, 2019
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  2. Added new parameters to config files

    @renewiegandt
    renewiegandt committed Mar 26, 2019
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  3. Minor changes

    @renewiegandt
    renewiegandt committed Mar 26, 2019
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  4. Minor changes

    @renewiegandt
    renewiegandt committed Mar 26, 2019
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  5. Merge pull request #92 from loosolab/estimation_motifs 

    Estimation motifs
    @renewiegandt
    renewiegandt committed Mar 26, 2019
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Commits on Mar 28, 2019

  1. Renamed log file

    @renewiegandt
    renewiegandt committed Mar 28, 2019
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  2. Update: new parameters

    @renewiegandt
    renewiegandt committed Mar 28, 2019
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  3. sorting gtf; bug fix; renaming gtf parameter

    @renewiegandt
    renewiegandt committed Mar 28, 2019
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  4. Merge pull request #93 from loosolab/estimation_motifs 

    Estimation motifs
    @renewiegandt
    renewiegandt committed Mar 28, 2019
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Commits on Apr 5, 2019

  1. Added TODO

    @renewiegandt
    renewiegandt committed Apr 5, 2019
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Commits on Apr 12, 2019

  1. Update test run

    @renewiegandt
    renewiegandt committed Apr 12, 2019
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  2. Improved error handling if parameter is missing

    @renewiegandt
    renewiegandt committed Apr 12, 2019
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  3. Merge branch 'dev' into estimation_motifs

    @renewiegandt
    renewiegandt committed Apr 12, 2019
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Commits on Apr 16, 2019

  1. Added error message for missing required parameters

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  2. Reworked check on required parameters

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  3. Merge pull request #95 from loosolab/estimation_motifs 

    Estimation motifs
    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  4. Added nextflwo to masterenv.yml

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  5. Merge pull request #96 from loosolab/estimation_motifs 

    Added nextflwo to masterenv.yml
    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  6. Add fixed channel for jellyfish package

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  7. Update documentation for installation

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  8. Merge pull request #97 from loosolab/estimation_motifs 

    Estimation motifs
    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  9. Update README.md

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  10. Update README.md

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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  11. Update README.md

    @renewiegandt
    renewiegandt committed Apr 16, 2019
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