run_VCAP: 'Run VCAP array jobs on HPC'

In yangjl/huskeR: Genomic and Genetic analysis Pipeline on HPC

Description

kallisto quant

Usage

run_VCAP(df, email = NULL, jobid = "run_vcap", runinfo = c(TRUE,
  "jclarke", "1", "8G", "8:00:00"))

Arguments

df	Input files. [data.frame, cols: "bedfile1", "bedfile2", ..., "bedfilen", gz.lix, genome_kinship and res_kinship]
runinfo	Parameters control the array job partition. A vector of c(TRUE, "bigmemh", "1", "8:00:00"): 1) run or not, 2) -p partition name, 3) –ntasks and 4) –times.

Details

see more detail about fastq-dump with Aspera downloading: https://pachterlab.github.io/kallisto/manual

Value

return a batch of shell scripts to run.

yangjl/huskeR documentation built on Sept. 2, 2021, 5:38 a.m.