Read config.yml for the locations of sample sheet, pipeline output and cut sites coordinates.

Subset sample sheet for those that match the target region of interest

Read bigwig files for the samples in the sample sheet

For each target region of interest, find the samples and for each sample plot coverage, insertion, and deletion profiles within the given window (target region: e.g. amplicon boundaries)

1 Plots

1.1 lin-41

1.1.1 lin41_DNA_N2

1.1.2 lin41_DNA_CDS

1.1.3 lin41_DNA_1516

1.1.4 lin41_DNA_pool1

1.1.5 lin41_DNA_pool2

1.1.6 lin41_DNA_pool3

1.1.7 lin41_DNA_sg1516_2627_pool3