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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
  • 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: error message because gtf_file did not exist
    #58 · created Jun 27, 2019 by herseman
    • CLOSED
    • 1
    updated Jun 27, 2019
  • dge_workflow: expression_explorer app failed to load due to renamed/additional annotation columns
    #91 · created Jul 10, 2020 by herseman   rna_seq
    • CLOSED
    • 1
    updated Jul 10, 2020
  • dge_workflow: fix lcf help
    #74 · created Oct 22, 2019 by domingue   rna_seq
    • CLOSED
    • 0
    updated Dec 02, 2019
  • dge_workflow: future improvements
    #75 · created Oct 22, 2019 by domingue   rna_seq
    • CLOSED
    • 1
    updated Jul 20, 2020
  • dge_workflow: include MA plot from ggpubr in dge report
    #55 · created Jun 07, 2019 by herseman
    • CLOSED
    • 1
    updated Jun 18, 2019
  • dge_workflow: report number of reads per gene
    #51 · created May 31, 2019 by herseman
    • 14
    updated Jun 30, 2020
  • error in the plotDispEsts()
    #2 · created Mar 07, 2016 by lakshman
    • CLOSED
    • 7
    updated Jul 08, 2017
  • exDesign: numeric vs categorical variables and shrinkage method
    #100 · created Feb 15, 2021 by gohr   rna_seq
    • CLOSED
    • 0
    updated Feb 23, 2021
  • Export counts as TPM in featcounts_deseq_mf.R
    #9 · created May 18, 2016 by brandl   rna_seq
    • CLOSED
    • 0
    updated Jul 08, 2017
  • export TPM instead of FPKM tables
    #14 · created May 19, 2017 by brandl   rna_seq
    • CLOSED
    • 1
    updated Jun 19, 2017
  • expression_explorer: harcoded Rscipt path
    #67 · created Aug 15, 2019 by domingue   rna_seq
    • CLOSED
    • 0
    updated Aug 21, 2019
  • finish panther enrichment and reintegrate into cp_enrichment.R
    #7 · created May 12, 2016 by brandl   rna_seq
    • CLOSED
    • 2
    updated Feb 20, 2020
  • Gene enrichment: script selects random genes if list too large
    #98 · created Oct 07, 2020 by domingue   rna_seq
    • CLOSED
    • 2
    updated Oct 07, 2020
  • general: add multiQC report to fastqc_summary
    #54 · created Jun 05, 2019 by herseman
    • CLOSED
    • 4
    updated Dec 02, 2019
  • general: create customized docker files for individual analyses done with our ngs_tools scripts
    #39 · created Feb 11, 2019 by herseman
    • 3
    updated Mar 14, 2019
  • general: create new human igenome for the Ensembl release 95
    #49 · created Apr 05, 2019 by herseman
    • CLOSED
    • 1
    updated Apr 05, 2019
  • general: create new human igenome for the Ensembl release 99
    #89 · created Jun 24, 2020 by herseman
    • CLOSED
    • 0
    updated Jun 24, 2020
  • general: create templates for R scripts and shinyApps and revise the dge_star_template
    #50 · created May 10, 2019 by herseman
    • 1
    updated May 14, 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
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