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Map sample input-output

Source: R/nextflow_annotation_utils.R
map_sample_io.Rd

Wrapper to map sample inputs and outputs depending on workflow type.

Usage

map_sample_io(
  workflow = c("nf-rnaseq", "nf-sarek"),
  samplesheet,
  syn_out,
  sample_level = 2
)

Arguments

workflow

Workflow.

samplesheet

A local file or syn id of samplesheet.

syn_out

Syn id of syn output destination with files of interest.

sample_level

If caller is organized by sample, use 2 (default), if samples organized by caller, use 3. See details.

Value

A table with sample level output_id output_name input_id.