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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
  • DESeq2 check current clustering method
    #24 · created Nov 15, 2017 by herseman
    • 0
    updated Nov 29, 2018
  • dge workflow: add GTF an argument for differential gene expression
    #57 · created Jun 20, 2019 by domingue   rna_seq
    • 2
    updated Jun 28, 2019
  • dge_workflow: report number of reads per gene
    #51 · created May 31, 2019 by herseman
    • 14
    updated Jun 30, 2020
  • 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 templates for R scripts and shinyApps and revise the dge_star_template
    #50 · created May 10, 2019 by herseman
    • 1
    updated May 14, 2019
  • gsea: improvments   2 of 4 tasks completed
    #97 · created Sep 24, 2020 by domingue   rna_seq
    • 0
    updated Oct 13, 2020
  • ms_workflow: aggregate protein isoforms data on gene level
    #32 · created Jan 15, 2019 by herseman   mass_spec
    • 0
    updated Feb 08, 2019
  • ms_workflow: handling of technical replicates
    #40 · created Feb 13, 2019 by herseman   mass_spec
    • 2
    updated Dec 09, 2019
  • ms_workflow: improve the results heatmap   2 of 3 tasks completed
    #66 · created Aug 15, 2019 by domingue   mass_spec
    • 1
    updated Aug 23, 2019
  • ms_workflow: move to peptide level
    #45 · created Mar 07, 2019 by herseman
    • 0
    updated Dec 10, 2019
  • ms_workflow: report number of peptides (unique and razor peptides) for each protein group
    #31 · created Jan 15, 2019 by herseman   mass_spec
    • 2
    updated Feb 08, 2019
  • report proportion of multi-mappers in STAR report
    #20 · created Nov 09, 2017 by herseman
    • 0
    updated Nov 16, 2017
  • run kallisto parallel to STAR
    #21 · created Nov 09, 2017 by herseman
    • 0
    updated Nov 09, 2017
  • sc_workflow: write single script for Seurat workflow with tested and approved settings
    #35 · created Jan 16, 2019 by herseman
    • 3
    updated Mar 22, 2019
  • Stranded counts
    #88 · created Mar 27, 2020 by domingue   rna_seq
    • 5
    updated Jul 13, 2020