cnvkit-target1

positional arguments:

interval

BED or interval file listing the targeted regions.

options:

-h, --help

show this help message and exit

--annotate ANNOTATE

Use gene models from this file to assign names to the target regions. Format: UCSC refFlat.txt or ensFlat.txt file (preferred), or BED, interval list, GFF, or similar.

--short-names

Reduce multi-accession bait labels to be short and consistent.

--split

Split large tiled intervals into smaller, consecutive targets.

-a AVG_SIZE, --avg-size AVG_SIZE

Average size of split target bins (results are approximate). [Default: 266.6666666666667]

-o FILENAME, --output FILENAME

Output file name.