svhound: SVhound

In lfpaulin/SVhound: SVhound

SVhound

Description

TODO

Usage

 sv_hound(structuralVariantsData="data/my_sv_dataset.svalleles", window_size=10000, output_prefix="my_sv_dataset") 

Arguments

structuralVariantsData	Input dataset, it can be a VCF file for which parsing instructions will be given or a TSV file output from vcf_parser_for_svhound.py
window_size	Integer that denotes the size of the windows in kilobases used to discretize the genome.
output_prefix	Prefix of the output file.
subsample	Number of genomes/individuals to be sampled from the 'structuralVariantsData'. It needs to be an integer greater than zero. Default=NULL
usePSF	Parameter to use the Pitman Sampling Formula instead of the Ewens Sampling Formula as the model. TURE/FALSE, default=FALSE
giveExampleData	Returns an example of the TSV file output from vcf_parser_for_svhound.py loaded in R. Default=FALSE
runExample	Runs the example dataset. Default=FALSE

lfpaulin/SVhound documentation built on July 27, 2022, 3:43 a.m.