predictUorfs: Predict uORFs using random forrest classification

In Roleren/uORFomePipe: uORF prediction in R

Predict uORFs using random forrest classification

Description

Training data pos set is by CDS (coding sequences) Neg seg is by trailers (3'UTRs)

Usage

predictUorfs(
  tissues = readTable("experiment_groups")[[1]],
  ip = "localhost",
  port = 54321,
  nthreads_h2o = max(min(45, as.integer(BiocParallel::bpparam()$workers/2)), 1),
  max_mem_size = "200G",
  mode = "uORF"
)

Arguments

tissues	Groups to train on, default (readTable("experiment_groups")[[1]]), use "combined" if you want mean of all groups
ip	h2o cluster ip, default: "localhost".
port	h2o cluster port, default: 54321
nthreads_h2o	number of cores for H20. Default: max(min(45, as.integer(BiocParallel::bpparam()$workers/2)), 1)
max_mem_size	max allowed memory for H20: default ("200G")
mode	character, default "uORF"

Roleren/uORFomePipe documentation built on Jan. 14, 2024, 5:11 a.m.