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