The cluster_identifier tool of Scramble identifies soft clipped clusters
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
input{:bash}
:file
BAM/CRAM file
*.{bam,cram}
input_index{:bash}
Index of the BAM/CRAM file
*.{bai,crai}
meta2{:bash}
Groovy Map containing information about the fasta file e.g. [ id:‘test’ ]
fasta{:bash}
The reference FASTA file (mandatory when using CRAM files)
*.{fasta,fa}
clusters{:bash}
*.clusters.txt{:bash}
Tab-delimited file containing the soft-clipped clusters
*.clusters.txt
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Soft Clipped Read Alignment Mapper
