Description

Calculates genome-wide sequencing coverage.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

3 ()

0 ()

1 ()

quantize_labels (list)

List of labels for quantized coverage bins, e.g. [ "NO_COVERAGE", "LOW_COVERAGE", "MEDIUM_COVERAGE", "HIGH_COVERAGE" ] The first value will be assigned to the MOSDEPTH_Q0 environment variable, the second to MOSDEPTH_Q1, and so on. These can then be used in the --quantize option of mosdepth to assign labels to quantized coverage bins.

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

Tools

mosdepth Documentation

Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.

doi: 10.1093/bioinformatics/btx699License: MIT
nf-core pipelines with this module
blobtoolkit
Authors