get.process.names: get.process.names

In omicsCore/SEQprocess: SEQprocess : a modularized and customizable pipeline framework for NGS processing in R package.

Description

Process names to be used in report

Usage

get.process.names(qc, trim.method, align.method, bwa.method , rm.dup, realign, variant.call.method, annotation.method, rseq.quant.method)

Arguments

qc	As the quality check progresses, qc is added to the report processes.
trim.method	As the trimming progresses, trimming method is added to the report processes.
align.method	As the alignment progresses, alignment method is added to the report processes.
bwa.method	When alignment is performed with bwa, bwa method is added to the report processes
rm.dup	As the removal of duplicates progresses, removal method is added to the report processes.
realign	As the re-alignment progresses, re-alignment is added to the report processes.
variant.call.method	As the variant calling progresses, variant calling method is added to the report processes.
annotation.methodd	As the variant annotation progresses, annotation method is added to the report processes.
rseq.quant.method	As the RNA quantification progresses, RNA quantification method is added to the report processes.

omicsCore/SEQprocess documentation built on May 7, 2020, 4:18 a.m.