Deduplicate reads based on the mapping co-ordinate and the UMI attached to the read.
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam:file
BAM file containing reads to be deduplicated via UMIs.
*.{bam}
bai:file
BAM index files corresponding to the input BAM file.
*.{bai}
get_output_stats:boolean
Whether or not to generate output stats.
bam
${prefix}.bam:file
BAM file with deduplicated UMIs.
log
*.log:file
File with logging information
*.{log}
tsv_edit_distance
*edit_distance.tsv:file
Reports the (binned) average edit distance between the UMIs at each position.
*edit_distance.tsv
tsv_per_umi
*per_umi.tsv:file
UMI-level summary statistics.
*per_umi.tsv
tsv_umi_per_position
*per_position.tsv:file
Tabulates the counts for unique combinations of UMI and position.
*per_position.tsv
versions
versions.yml:file
File containing software versions
versions.yml
UMI-tools contains tools for dealing with Unique Molecular Identifiers (UMIs)/Random Molecular Tags (RMTs) and single cell RNA-Seq cell barcodes
