Change orientation of x and y and increase sizes of fonts
Description
Changed the orientation of box plots (patients x n_subclones) and changed label font size.
Pipeline Run Results
Run script to generate one plot
module load R
Rscript ./plot_num_subclones_box.R \
-f /hot/project/method/AlgorithmEvaluation/BNCH-000082-SRCRNDSeed/pipeline-call-src/run-mutect2-battenberg-phylowgs/output/2023-04-23_num_subclones_mutect2_battenberg_pyloWGS_sr.tsv \
-p Mutect2-Battenberg-PhyloWGS \
-m sr \
-o /hot/project/method/AlgorithmEvaluation/BNCH-000082-SRCRNDSeed/pipeline-call-src/plots/boxplot/
Checklist
[x] This PR does NOT contain Protected Health Information (PHI). A repo may need to be deleted if such data is uploaded. Disclosing PHI is a major problem[^1] - Even a small leak can be costly[^2].
[x] This PR does NOT contain germline genetic data[^3], RNA-Seq, DNA methylation, microbiome or other molecular data[^4].
[x] This PR does NOT contain other non-plain text files, such as: compressed files, images (e.g..png, .jpeg), .pdf, .RData, .xlsx, .doc, .ppt, or other output files.
To automatically exclude such files using a .gitignore file, see here for example.
[x] I have set up or verified the main branch protection rule following the github standards before opening this pull request.
[x] The name of the branch is meaningful and well formatted following the standards, using [AD_username (or 5 letters of AD if AD is too long)]-[brief_description_of_branch].
[x] I have added the major changes included in this pull request to the CHANGELOG.md under the next release version or unreleased, and updated the date.
Change orientation of x and y and increase sizes of fonts
Description
Changed the orientation of box plots (patients x n_subclones) and changed label font size.
Pipeline Run Results
Run script to generate one plot
Checklist
[x] This PR does NOT contain Protected Health Information (PHI). A repo may need to be deleted if such data is uploaded.
Disclosing PHI is a major problem[^1] - Even a small leak can be costly[^2].
[x] This PR does NOT contain germline genetic data[^3], RNA-Seq, DNA methylation, microbiome or other molecular data[^4].
[^1]: UCLA Health reaches $7.5m settlement over 2015 breach of 4.5m patient records [^2]: The average healthcare data breach costs $2.2 million, despite the majority of breaches releasing fewer than 500 records. [^3]: Genetic information is considered PHI. Forensic assays can identify patients with as few as 21 SNPs [^4]: RNA-Seq, DNA methylation, microbiome, or other molecular data can be used to predict genotypes (PHI) and reveal a patient's identity.
.png
, .jpeg
),.pdf
,.RData
,.xlsx
,.doc
,.ppt
, or other output files.To automatically exclude such files using a .gitignore file, see here for example.
[x] I have read the code review guidelines and the code review best practice on GitHub check-list.
[x] I have set up or verified the
main
branch protection rule following the github standards before opening this pull request.[x] The name of the branch is meaningful and well formatted following the standards, using [AD_username (or 5 letters of AD if AD is too long)]-[brief_description_of_branch].
[x] I have added the major changes included in this pull request to the
CHANGELOG.md
under the next release version or unreleased, and updated the date.