API Reference¶
Command-Line Interface¶
grid¶
GRiD - Genomic Repeat inference from Depth
A modular pipeline for estimating copy number variants in the LPA gene’s KIV-2 VNTR region.
grid [OPTIONS] COMMAND [ARGS]...
Options
- -v, --version¶
Show the GRiD version
wgs¶
Whole Genome Sequencing (WGS) pipeline for estimating LPA KIV-2 copy numbers.
- Args:
config: Path to YAML configuration file specifying input CRAMs, reference genome, and pipeline
- Returns:
Haplotype KIV-2 copy number estimates for each sample in the input CRAMs, saved to an output file specified in the config.
grid wgs [OPTIONS] CONFIG
Arguments
- CONFIG¶
Required argument