shift read correction for ATAC/Cut&Tag

[sunta3iouxos]

Lot's of meta applications of ATAC or Cut&Tag require a correction/Shift read coordinates, introdused by Tn5.
A good tool to do so and can be implemented in the pipeline is this, and it is a deeptool:
alignmentSieve --numberOfProcessors max --ATACshift --blackListFileName hg38-blacklist.v2.bed --bam blacklist-filtered.bam -o ${prefix}.shifted.bam
Is this implemented?
In general for ATAC seq you need one track/bw for visualisation and another for footprint/motif discovery etc.