# bowtie2_index

Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences. bowtie2-build is used to build the index files.
Recipe source code: https://github.com/rworkflow/ReUseDataRecipe/blob/master/bowtie2_index.R (opens new window)
Data source: https://bowtie-bio.sourceforge.net/bowtie2/index.shtml (opens new window)

# plot

## bowtie2_index

# Inputs

label type description
genome reference genome File The reference genome file

# Outputs

label type description
btIdx bowtie2 index File[] A list of bowtie index files

# Example:

recipeLoad('bowtie2_index.R', return = TRUE)
bowtie2_index$genome <- 'GRCh38.primary_assembly.genome.fa'
getData(bowtie2_index, outdir = 'data/folder', notes = c('bowtie2_index', 'GRCh38.primary_assembly'))