Compute genome-wide STR profile
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
alignment_file:file
BAM/CRAM file
*.{bam,cram}
alignment_index:file
Index of the BAM/CRAM file
*.{bai,crai}
meta2:map
Groovy Map containing reference information e.g. [ id:‘test’ ]
fasta:file
The FASTA reference file
*.{fasta,fa}
meta3:map
fasta_fai:file
The index of the FASTA reference file
*.fai
locus_tsv
*.locus.tsv:file
The locus TSV file
*.tsv
motif_tsv
*.motif.tsv:file
The motif TSV file
str_profile
*.str_profile.json:file
The JSON file containing the STR profile
*.json
versions
versions.yml:file
File containing software versions
versions.yml
ExpansionHunter Denovo (EHdn) is a suite of tools for detecting novel expansions of short tandem repeats (STRs).
