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  • bioinfo
  • Issues

  • Open 16
  • Closed 94
  • All 110
  • Priority Created date Last updated Milestone due date Due date Popularity Label priority Manual Weight
  • gsea: improvments   2 of 4 tasks completed
    ngs_tools#97 · opened Sep 24, 2020 by domingue   rna_seq
    • 0
    updated Oct 13, 2020
  • Stranded counts
    ngs_tools#88 · opened Mar 27, 2020 by domingue   rna_seq
    • 5
    updated Jul 13, 2020
  • ms_workflow: improve the results heatmap   2 of 3 tasks completed
    ngs_tools#66 · opened Aug 15, 2019 by domingue   mass_spec
    • 1
    updated Aug 23, 2019
  • Deprecation of biocLite from R > 3.5.0
    datautils#4 · opened Jul 08, 2019 by domingue
    • 1
    updated Jul 11, 2019
  • dge workflow: add GTF an argument for differential gene expression
    ngs_tools#57 · opened Jun 20, 2019 by domingue   rna_seq
    • 2
    updated Jun 28, 2019
  • dge_workflow: report number of reads per gene
    ngs_tools#51 · opened May 31, 2019 by herseman
    • 14
    updated Jun 30, 2020
  • general: create templates for R scripts and shinyApps and revise the dge_star_template
    ngs_tools#50 · opened May 10, 2019 by herseman
    • 1
    updated May 14, 2019
  • ms_workflow: move to peptide level
    ngs_tools#45 · opened Mar 07, 2019 by herseman
    • 0
    updated Dec 10, 2019
  • ms_workflow: handling of technical replicates
    ngs_tools#40 · opened Feb 13, 2019 by herseman   mass_spec
    • 2
    updated Dec 09, 2019
  • general: create customized docker files for individual analyses done with our ngs_tools scripts
    ngs_tools#39 · opened Feb 11, 2019 by herseman
    • 3
    updated Mar 14, 2019
  • sc_workflow: write single script for Seurat workflow with tested and approved settings
    ngs_tools#35 · opened Jan 16, 2019 by herseman
    • 3
    updated Mar 22, 2019
  • ms_workflow: aggregate protein isoforms data on gene level
    ngs_tools#32 · opened Jan 15, 2019 by herseman   mass_spec
    • 0
    updated Feb 08, 2019
  • ms_workflow: report number of peptides (unique and razor peptides) for each protein group
    ngs_tools#31 · opened Jan 15, 2019 by herseman   mass_spec
    • 2
    updated Feb 08, 2019
  • DESeq2 check current clustering method
    ngs_tools#24 · opened Nov 15, 2017 by herseman
    • 0
    updated Nov 29, 2018
  • run kallisto parallel to STAR
    ngs_tools#21 · opened Nov 09, 2017 by herseman
    • 0
    updated Nov 09, 2017
  • report proportion of multi-mappers in STAR report
    ngs_tools#20 · opened Nov 09, 2017 by herseman
    • 0
    updated Nov 16, 2017