What scientific question is your analysis addressing?
This PR adds R script 09-survival-clk1-psi.Rmd to the survival analysis module to assess overall and event-free survival within histology and molecular subtype cohorts and including CLK1 exon 4 PSI as a covariate.
What was your approach?
What GitHub issue does your pull request address?
Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.
Which areas should receive a particularly close look?
Please review code in Rscript and ensure results are produced as expected:
R -e "rmarkdown::render('09-survival-clk1-psi.Rmd')"
Is there anything that you want to discuss further?
Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?
Results
What types of results are included (e.g., table, figure)?
What is your summary of the results?
Increases in CLK1 exon 4 PSI were associated with better OS in HGG and EPN, and better EFS in patients with GNG and "other" subgroup.
Reproducibility Checklist
[ ] The dependencies required to run the code in this pull request have been added to the project Dockerfile.
Documentation Checklist
[ ] This analysis module has a README and it is up to date.
[ ] The analytical code is documented and contains comments.
Purpose/implementation Section
What scientific question is your analysis addressing?
This PR adds R script
09-survival-clk1-psi.Rmdto thesurvivalanalysis module to assess overall and event-free survival within histology and molecular subtype cohorts and including CLK1 exon 4 PSI as a covariate.What was your approach?
What GitHub issue does your pull request address?
Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.
Which areas should receive a particularly close look?
Please review code in Rscript and ensure results are produced as expected:
R -e "rmarkdown::render('09-survival-clk1-psi.Rmd')"Is there anything that you want to discuss further?
Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?
Results
What types of results are included (e.g., table, figure)?
What is your summary of the results?
Increases in CLK1 exon 4 PSI were associated with better OS in HGG and EPN, and better EFS in patients with GNG and "other" subgroup.
Reproducibility Checklist
Documentation Checklist
READMEand it is up to date.