A module for human metapneumovirus to be used with IRMA (https://wonder.cdc.gov/amd/flu/irma/index.html).
Instructions for use:
- Install IRMA
- Place HMPV folder from this repo into the IRMA_RES/modules folder.
- To run:
IRMA HMPV <input.read_1> <input.read_2> sample
The HMPV module contains references for A1, A2a, A2b, A2b + 111 nt duplication, A2b + 180 nt duplication, B1, and B2 lineages. The consensus sequences for each reference are derived from all whole genomes available on genbank on October 18, 2024. Samples and sequences used in the reference consequence sequences are in reference_samples.
The paper, "A new IRMA module for analyzing whole-genome sequences from human metapneumovirus" available at https://journals.asm.org/doi/full/10.1128/mra.00901-25, describes this module.