Repeat Explorer

Repeat Explorer in Galaxy service
ls /cvmfs/singularity.metacentrum.cz/RepeatExplorer/ # as a Singularity image
module avail repeatexplorer/                         # as a module          

Repeat Explorer is a computational pipeline for the discovery and characterization of repetitive sequences in eukaryotic genomes.

Galaxy service

Repeat Explorer is accessible through Galaxy service.

Singularity image

Before executing the Singularity image (singularity exec...) located in /cvmfs/singularity.metacentrum.cz/RepeatExplorer, call the command

export SINGULARITYENV_TMPDIR=$SCRATCHDIR

to redirect temporary files otherwise the calculation probably will fail with sqlite3.OperationalError: disk I/O error.

Module

RepeatExplorer is also available as a conventional module.

module avail repeatexplorer/