OPERA-MS

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Description

OPERA-MS is a hybrid metagenomic assembler which combines the advantages of short and long-read technologies to provide high quality assemblies, addressing issues of low contiguity for short-read only assemblies, and low base-pair quality for long-read only assemblies. OPERA-MS has been extensively tested on mock and real communities sequenced using different long-read technologies, including Oxford Nanopore, PacBio and Illumina Synthetic Long Read, and is particularly robust to noise in the read data.

License

The OPERA-MS pipeline is licensed under the MIT License.

Usage

Upcoming modulesystem change alert!

Due to large number of applications and their versions it is not practical to keep them explicitly listed at our wiki pages. Therefore an upgrade of modulefiles is underway. A feature of this upgrade will be the existence of default module for every application. This default choice does not need version number and it will load some (usually latest) version.

You can test the new version now by adding a line

source /cvmfs/software.metacentrum.cz/modulefiles/5.1.0/loadmodules

to your script before loading a module. Then, you can list all versions of operams and load default version of operams as

module avail operams/ # list available modules
module load operams   # load (default) module


If you wish to keep up to the current system, it is still possible. Simply list all modules by

module avail operams

and choose explicit version you want to use.

Documentation

https://github.com/CSB5/OPERA-MS#usage

Homepage

https://github.com/CSB5/OPERA-MS