build_kallisto_index: Download ensembl transcriptome and build index for 'kalliso'...

In alexvpickering/rkal: Run, Import, and Export 'kallisto' Quantifications

Download ensembl transcriptome and build index for 'kalliso' quantification

Description

This index is used for RNA seq quantification.

Usage

build_kallisto_index(indices_dir, species = "homo_sapiens", release = "94")

Arguments

indices_dir	Path to directory to create indices folder in for storing kallisto indices.
species	The species. Default is 'homo_sapiens'.
release	ensembl release. Default is 94 (latest in release for AnnotationHub - needs to match with build_ensdb).

Value

Called for side effects. Saves 'kallisto' index.

Examples

# build kallisto index for humans
indices_dir <- getwd()
# build_kallisto_index(indices_dir)

alexvpickering/rkal documentation built on Nov. 27, 2022, 8:38 p.m.