Issues · bioinfo / ngs_tools · GitLab

ms_workflow: add intensities to results table

#60 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 2
updated Aug 09, 2019
ms_workflow: add more explanations

#63 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 1
updated Aug 09, 2019
ms_workflow: add % of NAs to results table

#61 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 1
updated Aug 09, 2019
ms_workflow: add option to run analysis on raw intensities instead of LFQs

#30 · created Jan 15, 2019 by herseman
- CLOSED
- 0
updated Jan 15, 2019
ms_workflow: Add table with % of contaminants in the most abudant proteins

#68 · created Aug 26, 2019 by domingue mass_spec
- CLOSED
- 0
updated Aug 26, 2019
ms_workflow: handling of contaminations

#37 · created Feb 08, 2019 by herseman mass_spec
- CLOSED
- 1
updated Dec 10, 2019
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: ms_limma.R returns error when no differentially abundant proteins were found

#41 · created Feb 14, 2019 by herseman mass_spec
- CLOSED
- 1
updated Feb 14, 2019
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
ms_workflow: QC improvments

#64 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 1
updated Aug 13, 2019
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 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
revise limma workflow for mass spec data

#29 · created Jan 10, 2019 by herseman
- CLOSED
- 1
updated Jan 11, 2019
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

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