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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
  • auto-detect strandedness when extracting count matrix
    #16 · created May 29, 2017 by brandl
    • CLOSED
    • 2
    updated Mar 27, 2020
  • Move workflows to separate repositories
    #87 · created Mar 19, 2020 by domingue
    • CLOSED
    • 4
    updated Mar 20, 2020
  • ms_workflow: ms_ms_prop and reorder information are missing for protein IDs without fasta_header information
    #86 · created Mar 17, 2020 by herseman   mass_spec
    • CLOSED
    • 1
    updated Mar 17, 2020
  • dge_workflow: collect_kallisto_data.R fails for paired-end data
    #84 · created Mar 12, 2020 by herseman   rna_seq
    • CLOSED
    • 2
    updated Mar 12, 2020
  • finish panther enrichment and reintegrate into cp_enrichment.R
    #7 · created May 12, 2016 by brandl   rna_seq
    • CLOSED
    • 2
    updated Feb 20, 2020
  • iGenome permissions
    #76 · created Nov 15, 2019 by domingue   rna_seq
    • CLOSED
    • 0
    updated Feb 20, 2020
  • Implement renvs
    #73 · created Sep 16, 2019 by domingue   mass_spec rna_seq
    • CLOSED
    • 2
    updated Feb 20, 2020
  • update to more recent https://github.com/deeptools/deepTools/releases
    #26 · created Aug 16, 2018 by brandl   2h
    • CLOSED
    • 3
    updated Feb 20, 2020
  • report improvements
    #25 · created Nov 16, 2017 by brandl
    • CLOSED
    • 1
    updated Feb 20, 2020
  • Integrate tools to assess gc/3/5 bias, insert size, and capture efficiency
    #11 · created Oct 11, 2016 by brandl   rna_seq
    • CLOSED
    • 1
    updated Feb 20, 2020
  • ms_workflow: refine reorder information of protein groups
    #83 · created Feb 18, 2020 by herseman   mass_spec
    • CLOSED
    • 1
    updated Feb 18, 2020
  • general: track unsynchronized files on the cluster
    #82 · created Feb 17, 2020 by herseman
    • CLOSED
    • 1
    updated Feb 17, 2020
  • dge _workflow: analyze duplicates has a broken link to the plot of the model (dupRadar)
    #81 · created Feb 10, 2020 by domingue   rna_seq
    • CLOSED
    • 1
    updated Feb 10, 2020
  • MS: How is imputation done?
    #80 · created Jul 19, 2019 by domingue
    • CLOSED
    • 5
    updated Jan 24, 2020
  • conda and bioconductor version
    #77 · created Jan 14, 2020 by domingue
    • CLOSED
    • 9
    updated Jan 21, 2020
  • ms_workflow: Improvemnts   7 of 9 tasks completed
    #28 · created Dec 07, 2018 by brandl   mass_spec
    • CLOSED
    • 3
    updated Dec 10, 2019
  • ms_workflow: handling of contaminations
    #37 · created Feb 08, 2019 by herseman   mass_spec
    • CLOSED
    • 1
    updated Dec 10, 2019
  • try RNA-SeQC to get qc for bam files
    #15 · created May 19, 2017 by brandl
    • CLOSED
    • 1
    updated Dec 09, 2019
  • general: add multiQC report to fastqc_summary
    #54 · created Jun 05, 2019 by herseman
    • CLOSED
    • 4
    updated Dec 02, 2019
  • dge_workflow: fix lcf help
    #74 · created Oct 22, 2019 by domingue   rna_seq
    • CLOSED
    • 0
    updated Dec 02, 2019
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