Clair3 1.0.4-foss-2022a

Clair3 is a germline small variant caller for long-reads. Clair3 makes the best of two major method categories: pileup calling handles most variant candidates with speed, and full-alignment tackles complicated candidates to maximize precision and recall. Clair3 runs fast and has superior performance, especially at lower coverage. Clair3 is simple and modular for easy deployment and integration.

Accessing Clair3 1.0.4-foss-2022a

To load the module for Clair3 1.0.4-foss-2022a please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load bear-apps/2022a
module load Clair3/1.0.4-foss-2022a

BEAR Apps Version

2022a

Architectures

EL8-cascadelakeEL8-icelake

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

More Information

For more information visit the Clair3 website.

Dependencies

This version of Clair3 has a direct dependency on: Automake/1.16.5-GCCcore-11.3.0 bzip2/1.0.8-GCCcore-11.3.0 cffi/1.15.1-GCCcore-11.3.0 cURL/7.83.0-GCCcore-11.3.0 foss/2022a HTSlib/1.15.1-GCC-11.3.0 libdeflate/1.10-GCCcore-11.3.0 mpath/1.1.3-GCCcore-11.3.0 parallel/20220722-GCCcore-11.3.0 pigz/2.7-GCCcore-11.3.0 PyPy/7.3.12-3.10 PyTables/3.8.0-foss-2022a Python/3.10.4-GCCcore-11.3.0 SAMtools/1.16.1-GCC-11.3.0 TensorFlow/2.11.0-foss-2022a WhatsHap/1.7-foss-2022a zlib/1.2.12-GCCcore-11.3.0 zstd/1.5.2-GCCcore-11.3.0

Last modified on 29th November 2023