bwaIndexPrefix: Generates a prefix for the index files

In HenrikBengtsson/aroma.seq: High-Throughput Sequence Analysis using the Aroma Framework

Description

Generates a prefix for the index files based on a FASTA pathname.

Usage

## Default S3 method:
bwaIndexPrefix(pathnameFA, subdir="bwa", tags="*", ...)

Arguments

pathnameFA	The FASTA file.
subdir	The subdirectory relative to the FASTA file where to put the BWA index files.
tags	Tags added to the directory of the index set.
...	Not used.

Author(s)

Henrik Bengtsson

Examples

  pathnameFA <- "annotationData/organisms/Lambda_phage/lambda_virus.fa"
  prefix <- bwaIndexPrefix(pathnameFA)
  print(prefix)

HenrikBengtsson/aroma.seq documentation built on Feb. 15, 2021, 2:21 a.m.