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  • bioinfo
  • ngs_tools
  • Issues

  • Open 15
  • Closed 88
  • All 103
New issue
  • Priority Created date Last updated Milestone due date Due date Popularity Label priority Manual Title
  • ms_workflow: add intensities to results table
    #60 · created Aug 09, 2019 by domingue   mass_spec
    • CLOSED
    • 2
    updated Aug 09, 2019
  • MS worflow: improvements
    #59 · created Jul 17, 2019 by domingue
    • CLOSED
    • 10
    updated Aug 07, 2019
  • dge_workflow: error message because gtf_file did not exist
    #58 · created Jun 27, 2019 by herseman
    • CLOSED
    • 1
    updated Jun 27, 2019
  • dge_workflow: echoing R code in to Rscript not loading personal library packages
    #56 · created Jun 19, 2019 by domingue   rna_seq
    • CLOSED
    • 2
    updated Jun 20, 2019
  • dge_workflow: include MA plot from ggpubr in dge report
    #55 · created Jun 07, 2019 by herseman
    • CLOSED
    • 1
    updated Jun 18, 2019
  • general: add multiQC report to fastqc_summary
    #54 · created Jun 05, 2019 by herseman
    • CLOSED
    • 4
    updated Dec 02, 2019
  • general: Test packrat for keep reproducible R environments
    #53 · created Jun 04, 2019 by domingue
    • CLOSED
    • 4
    updated Sep 16, 2019
  • general: think about using argparser instead of docopt for futur scripts
    #52 · created Jun 03, 2019 by herseman
    • CLOSED
    • 6
    updated May 26, 2020
  • general: create new human igenome for the Ensembl release 95
    #49 · created Apr 05, 2019 by herseman
    • CLOSED
    • 1
    updated Apr 05, 2019
  • general: fix issues which occur due to updated R package versions
    #48 · created Apr 03, 2019 by herseman
    • CLOSED
    • 1
    updated Apr 09, 2019
  • sc_workflow: add shinyApp to explore Seurat clusterings
    #47 · created Mar 20, 2019 by herseman
    • CLOSED
    • 5
    updated Mar 22, 2019
  • sc_workflow: add additional gene information for the top50 most highly abundant features in `sc_quality_check.R`
    #46 · created Mar 13, 2019 by herseman
    • CLOSED
    • 1
    updated Mar 13, 2019
  • sc_workflow: write ShinyApp to explore metrics from the initial quality control
    #44 · created Mar 04, 2019 by herseman
    • CLOSED
    • 3
    updated Mar 20, 2019
  • sc_workflow: add script for the calculation of diffusion map and pseudo time using the `destiny` package
    #43 · created Mar 01, 2019 by herseman
    • CLOSED
    • 2
    updated Mar 05, 2019
  • sc_workflow: update sc_quality_check.R
    #42 · created Feb 28, 2019 by herseman
    • CLOSED
    • 4
    updated Mar 20, 2019
  • ms_workflow: ms_limma.R returns error when no differentially abundant proteins were found
    #41 · created Feb 14, 2019 by herseman   mass_spec
    • CLOSED
    • 1
    updated Feb 14, 2019
  • general: save the actually used ngs_tools script in results data folder
    #38 · created Feb 11, 2019 by herseman
    • CLOSED
    • 7
    updated Mar 13, 2019
  • ms_workflow: handling of contaminations
    #37 · created Feb 08, 2019 by herseman   mass_spec
    • CLOSED
    • 1
    updated Dec 10, 2019
  • ms_workflow: add additional quality metrics to the differential abundance analysis output
    #36 · created Feb 06, 2019 by herseman   mass_spec
    • CLOSED
    • 3
    updated Mar 08, 2019
  • ms_workflow: report differential abundance proteins along with the identification type information as well as additional protein information
    #34 · created Jan 15, 2019 by herseman
    • CLOSED
    • 1
    updated Feb 01, 2019
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