taxmyphage 0.2.7-foss-2022b

Script to assign taxonomy to a bacteriophage at the genus and species level. It will identify the most similar genomes in the set of currently classified ICTV genomes that are present in the VMR. Read about the VMR here. It will compare the query genome against these genomes and run a VIRIDIC-like analysis on the closest relatives. Interpret the output of VIRIDIC-like analysis to determine if the phage falls within a current genus and or species. It does not run VIRIDIC, but utilises the same formula for comparison of genomes. The input is a single genome sequence. The remainder of the analysis is automated

Accessing taxmyphage 0.2.7-foss-2022b

To load the module for taxmyphage 0.2.7-foss-2022b please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load bear-apps/2022b
module load taxmyphage/0.2.7-foss-2022b

BEAR Apps Version

2022b

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

• asttokens 2.2.1
• executing 1.2.0
• icecream 2.1.3
• taxmyphage 0.2.7
• wget 3.2

More Information

For more information visit the taxmyphage website.

Dependencies

This version of taxmyphage has a direct dependency on: Biopython/1.81-foss-2022b BLAST+/2.14.0-gompi-2022b foss/2022b Mash/2.3-GCC-12.2.0 networkx/3.0-gfbf-2022b openpyxl/3.1.2-GCCcore-12.2.0 Python/3.10.8-GCCcore-12.2.0 SciPy-bundle/2023.02-gfbf-2022b Seaborn/0.12.2-foss-2022b tqdm/4.64.1-GCCcore-12.2.0

Last modified on 1st March 2024