phyloRNA: phyloRNA: A package for phylogenetical analysis of RNA data

In bioDS/phyloRNA: Tools for phylogenetic analyses of scRNAseq data

Description

A package with functions to facilitate creating pipelines for the phylogenetic analysis of RNA, especially single-cell RNA, data.

External software

The phyloRNA package performs a number of calls to external programs. By default, the package assumes that the path to the binaries is in the PATH environment variable and so that calling only the name of the program is required (such as samtools instead of path/to/samtools). If this is not true or the binary or symlink to it exists under a different name, you might need to modify following options():

• phyloRNA_cellranger a path to the 10x Genomic's cellranger software

• phyloRNA_gatk a path to the Broad Institute Genome Analysis Toolkit (GATK)

bioDS/phyloRNA documentation built on Feb. 21, 2022, 3:28 p.m.