Issues · bioinfo / ngs_tools · GitLab

ms_workflow: refine reorder information of protein groups

#83 · created Feb 18, 2020 by herseman mass_spec
- CLOSED
- 1
updated Feb 18, 2020
ms_workflow: replace PCA with plotly

#62 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 2
updated Aug 09, 2019
ms_workflow: report differential abundance proteins along with the identification type information as well as additional protein information

#34 · created Jan 15, 2019 by herseman
- CLOSED
- 1
updated Feb 01, 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
ms_workflow: report settings from MaxQuant log file

#33 · created Jan 15, 2019 by herseman mass_spec
- CLOSED
- 2
updated Feb 12, 2019
new ticket

#27 · created Nov 15, 2018 by brandl 3h
- CLOSED
- 3
updated Dec 07, 2018
report improvements

#25 · created Nov 16, 2017 by brandl
- CLOSED
- 1
updated Feb 20, 2020
report proportion of multi-mappers in STAR report

#20 · created Nov 09, 2017 by herseman
- 0
updated Nov 16, 2017
revise limma workflow for mass spec data

#29 · created Jan 10, 2019 by herseman
- CLOSED
- 1
updated Jan 11, 2019
run kallisto parallel to STAR

#21 · created Nov 09, 2017 by herseman
- 0
updated Nov 09, 2017
sc_workflow: add additional gene information for the top50 most highly abundant features in `sc_quality_check.R`

#46 · created Mar 13, 2019 by herseman
- CLOSED
- 1
updated Mar 13, 2019
sc_workflow: add script for the calculation of diffusion map and pseudo time using the `destiny` package

#43 · created Mar 01, 2019 by herseman
- CLOSED
- 2
updated Mar 05, 2019
sc_workflow: add shinyApp to explore Seurat clusterings

#47 · created Mar 20, 2019 by herseman
- CLOSED
- 5
updated Mar 22, 2019
sc_workflow: update sc_quality_check.R

#42 · created Feb 28, 2019 by herseman
- CLOSED
- 4
updated Mar 20, 2019
sc_workflow: write ShinyApp to explore metrics from the initial quality control

#44 · created Mar 04, 2019 by herseman
- CLOSED
- 3
updated Mar 20, 2019
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
try RNA-SeQC to get qc for bam files

#15 · created May 19, 2017 by brandl
- CLOSED
- 1
updated Dec 09, 2019
update to more recent https://github.com/deeptools/deepTools/releases

#26 · created Aug 16, 2018 by brandl 2h
- CLOSED
- 3
updated Feb 20, 2020
updating ms_workflow

#79 · created Jan 23, 2020 by herseman mass_spec
- CLOSED
- 14
updated Jul 13, 2020

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