WhatsHap 1.7-foss-2022a

WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called read-based phasing or haplotype assembly. It is especially suitable for long reads, but works also well with short reads.

Accessing WhatsHap 1.7-foss-2022a

To load the module for WhatsHap 1.7-foss-2022a please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2022a
module load WhatsHap/1.7-foss-2022a

BEAR Apps Version

2022a

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

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.

Extensions

• pulp 2.7.0
• WhatsHap 1.7
• xopen 1.5.0

More Information

For more information visit the WhatsHap website.

Dependencies

This version of WhatsHap has a direct dependency on: Biopython/1.79-foss-2022a foss/2022a networkx/2.8.4-foss-2022a pyfaidx/0.7.1-GCCcore-11.3.0 Pysam/0.19.1-GCC-11.3.0 Python/3.10.4-GCCcore-11.3.0 python-isal/1.1.0-GCCcore-11.3.0 SciPy-bundle/2022.05-foss-2022a Yasm/1.3.0-GCCcore-11.3.0

Required By

This version of WhatsHap is a direct dependent of: Clair3/1.0.4-foss-2022a medaka/1.11.1-foss-2022a

Other Versions

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

Last modified on 14th November 2023