ont-remora 2.0.0-foss-2022a

Deprecated: Use of this version of ont-remora is deprecated. More information on our Applications Support and Retention Policy.

Methylation/modified base calling separated from basecalling. Remora primarily provides an API to call modified bases for basecaller programs such as Bonito. Remora also provides the tools to prepare datasets, train modified base models and run simple inference.

Accessing ont-remora 2.0.0-foss-2022a

To load the module for ont-remora 2.0.0-foss-2022a please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load ont-remora/2.0.0-foss-2022a

There is a GPU enabled version of this module: ont-remora 2.0.0-foss-2022a-CUDA-11.7.0

BEAR Apps Version

2018b

Extensions

  • iso8601 1.1.0
  • lib_pod5 0.1.5
  • ont-remora-2.0.0
  • pod5 0.1.5
  • thop 0.1.1.2209072238
  • vbz_h5py_plugin 1.0.1

More Information

For more information visit the ont-remora website.

Dependencies

This version of ont-remora has a direct dependency on: Arrow/8.0.0-foss-2022a foss/2022a h5py/3.7.0-foss-2022a Pysam/0.20.0-GCC-11.3.0 Python/3.10.4-GCCcore-11.3.0 python-parasail/1.3.3-foss-2022a PyTorch/1.12.1-foss-2022a scikit-learn/1.1.2-foss-2022a SciPy-bundle/2022.05-foss-2022a tqdm/4.64.0-GCCcore-11.3.0

Other Versions

These versions of ont-remora are available on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Version BEAR Apps Version
2.0.0-foss-2022a-CUDA-11.7.0 2022a

Last modified on 23rd January 2023