Calls CNVs in bam files from tumor patients
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
normal:file
BAM files
*.bam
normal_index:file
BAM file indices
*.bam.bai
tumor:file
tumor_index:file
bed:file
annotated BED file containing target regions
*.bed
fasta:file
genome FASTA file
*.fasta
png
meta:file
PNG file containing profile plot
*.profile.png
*.profile.png:file
profile
TXT file containing profile data
*.profile.txt
*.profile.txt:file
summary
TXT file containing summarized data
*.summary.txt
*.summary.txt:file
versions
versions.yml:file
File containing software versions
versions.yml
a package to detect copy number changes in Deep Sequencing data
