Issues · bioinfo / ngs_tools · GitLab

Add option to perform diffex-test in mf_feat_counts.R using fc-cutoff > 0.

#12 · created Apr 10, 2017 by brandl rna_seq
- CLOSED
- 2
updated Jun 19, 2017
Add pcr duplication analysis for rna-seq workflow

#6 · created Apr 22, 2016 by brandl rna_seq
- CLOSED
- 0
updated Nov 09, 2017
argparser error when --bam_files is the last optional argument

#90 · created Jul 01, 2020 by domingue rna_seq
- CLOSED
- 4
updated Jul 01, 2020
Changes in ggplot break boxplot in fastqc_summary.R

#72 · created Sep 09, 2019 by domingue rna_seq
- CLOSED
- 1
updated Sep 09, 2019
create tool to create igv session file list of bam files

#8 · created May 14, 2016 by brandl rna_seq
- CLOSED
- 1
updated Jul 08, 2017
cut delimeter breaks fastqc_summary.R

#70 · created Sep 09, 2019 by domingue rna_seq
- CLOSED
- 0
updated Sep 09, 2019
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: 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
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
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: 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
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
Grep error message crashes the script

#71 · created Sep 09, 2019 by domingue rna_seq
- CLOSED
- 0
updated Sep 09, 2019