mm2_install

Install <code>minimap2</code> using conda or mamba. Conda or mamba is required for installation.

Wrapper for 'Minimap2'. 'Minimap2' is a very valuable long read aligner for the Pacbio and Oxford Nanopore Technologies sequencing platforms. 'minimapR' is an R wrapper for 'minimap2' which was developed by Heng Li <me@liheng.org>.
*SPECIAL NOTES
1. Examples can only be run from 'GitHub' installation.
2. 'conda' or 'mamba' must be used to install 'minimapR' on your system.
3. For Windows users, 'minimap2' and 'samtools' can be installed via MSYS2, instructions are provided when 'minimap2_installation()' is run.
Li, Heng (2018) <doi:10.1093/bioinformatics/bty191> "Minimap2: pairwise alignment for nucleotide sequences".

Jake Reed

minimapR

Wrapper for 'minimap2'

Pradyun Pulipaka

mm2_install function

<dl><dt>verbose</dt>
<dd>Logical value to print progress of the installation. Default is <code>TRUE</code>. If set to <code>FALSE</code>, it will suppress the output messages during installation.</dd></dl>

Arguments

minimap2_install — mm2_install

<dl>

<dt>verbose</dt>
<dd>Logical value to print progress of the installation. Default is <code>TRUE</code>. If set to <code>FALSE</code>, it will suppress the output messages during installation.</dd>

</dl>

mm2_install: minimap2_install

Description

Usage

Value

Arguments

Examples