get.fend.samples: Sample fragment ends randomly to get a null distribution

In ChristopherBarrington/domainClassifyR: Classification of Hi-C interaction domains

Description

Randomly samples the total observed fend pairs and potential fend pairs to randomly select the same number of fend pairs that are high-scoring. The random selection is repeated and a null distribution for domain sector scores determined.

Usage

get.fend.samples(contacts, random_seed = FALSE, n = 1000,
  cluster_size = 20, distribute_method = "SGE", parse_result = TRUE,
  sleeptime = 300, sge_resources = list(), save.command = TRUE)

Arguments

contacts	The list of domains generated from get.contacts()
n	Number of times random selection is repeated
cluster.size	Number of parallel threads to run

Details

Parallelisation is achieved using the distributR package and the PARALLEL distribution option.

Value

The contacts list, with additional information

ChristopherBarrington/domainClassifyR documentation built on May 3, 2019, 5:22 p.m.