Issues · bioinfo / ngs_tools · GitLab

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: 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: aggregate protein isoforms data on gene level

#32 · created Jan 15, 2019 by herseman mass_spec
- 0
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
ms_workflow: add additional quality metrics to the differential abundance analysis output

#36 · created Feb 06, 2019 by herseman mass_spec
- CLOSED
- 3
updated Mar 08, 2019
ms_workflow: handling of contaminations

#37 · created Feb 08, 2019 by herseman mass_spec
- CLOSED
- 1
updated Dec 10, 2019
ms_workflow: handling of technical replicates

#40 · created Feb 13, 2019 by herseman mass_spec
- 2
updated Dec 09, 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: add intensities to results table

#60 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 2
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: replace PCA with plotly

#62 · 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: QC improvments

#64 · created Aug 09, 2019 by domingue mass_spec
- CLOSED
- 1
updated Aug 13, 2019
DEP installation on falcon - nc-config missing

#65 · created Aug 14, 2019 by domingue mass_spec
- CLOSED
- 1
updated Sep 17, 2019
ms_workflow: improve the results heatmap 2 of 3 tasks completed

#66 · created Aug 15, 2019 by domingue mass_spec
- 1
updated Aug 23, 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_worflow: bug in heatmap clustering

#69 · created Aug 27, 2019 by domingue mass_spec
- CLOSED
- 1
updated Aug 28, 2019
Implement renvs

#73 · created Sep 16, 2019 by domingue mass_spec rna_seq
- CLOSED
- 2
updated Feb 20, 2020
updating ms_workflow

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