load_from_xlsx: Create experiment

In jngwehi/loxcodeR: Loxcode Tools

Description

Create a loxcode_experiment from xlsx sample table.

Usage

load_from_xlsx(
  name,
  s,
  dir,
  suffix_R1,
  suffix_R2,
  load = TRUE,
  full = FALSE,
  sat = FALSE
)

Arguments

name	string, name of the experiment
s	string, path to user-specified Excel file containing experiment samples.
dir	string, path to directory containing fastq files
suffix_R1	string, R1 suffix
suffix_R2	string, R2 suffix
load	boolean, whether to load samples or not (default is TRUE)
full	boolean, whether to produce full debugging output (default is FALSE, this uses significantly more memory)
sat	boolean, whether to keep saturation info

Details

Must contain the following columns:

* 'sample' – sample name. This is used as the unique identifier for the sample

* 'prefix' – sample prefix. suffix_R1 and suffix_R2 are appended to this

* 'meta' – sample metadata. This is user specified

* 'min_r1_len' – minimum R1 length

* 'min_r2_len' – minimum R2 length

Value

loxcode_experiment object

jngwehi/loxcodeR documentation built on March 17, 2020, 5:32 p.m.