The cluster_identifier tool of Scramble identifies soft clipped clusters
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
input:file
BAM/CRAM file
*.{bam,cram}
input_index:file
Index of the BAM/CRAM file
*.{bai,crai}
fasta:file
The reference FASTA file (mandatory when using CRAM files)
*.{fasta,fa}
clusters
*.clusters.txt:file
Tab-delimited file containing the soft-clipped clusters
*.clusters.txt
versions
versions.yml:file
File containing software versions
versions.yml
Soft Clipped Read Alignment Mapper
