BEAR Applications

ont-remora 2.0.0-foss-2022a-CUDA-11.7.0

Unsupported: Use of this version of ont-remora is not supported. 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-CUDA-11.7.0

To load the module for ont-remora 2.0.0-foss-2022a-CUDA-11.7.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load bear-apps-unsupported/handbuilt/2019
module load ont-remora/2.0.0-foss-2022a-CUDA-11.7.0

There is a CPU version of this module: ont-remora 2.0.0-foss-2022a

BEAR Apps Version

2019h

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-CUDA-11.7.0 CUDA/11.7.0 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-CUDA-11.7.0 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, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 23rd January 2023