Quality control of copy number data from bulk WGS assays
meta:map
Groovy Map containing sample information e.g. [ id:'sample1' ]
[ id:'sample1' ]
snv_rds:file
R object with mutation data
*.rds
cna_rds:file
R object with copy number data
tumour_sample:string
string containing sample name
qc_rds
Groovy Map containing sample information e.g. [ id:'sample1', tumour_sample:'tumour_sample1_name' ]
[ id:'sample1', tumour_sample:'tumour_sample1_name' ]
*_qc.rds:file
R object containing quality control results for the sample
*{_qc.rds}
data_plot_rds
*_data_plot.rds:file
R object containing plots of the CNA statistics for the sample
*{_data_plot.rds}
*_qc_plot.rds:file
R object containing plots of the quality control results for the sample
*{_qc_plot.rds}
qc_plot_rds
plot_pdf_data
*_data.pdf:file
plots of the CNA statistics for the sample
*{_data.pdf}
plot_pdf_qc
*_qc.pdf:file
plots of the quality control results for the sample
*{_qc.pdf}
versions
versions.yml:file
File containing software versions
versions.yml
Copy number quality control
