hmmer

Download        : docker pull ghcr.io/autamus/hmmer
Compressed Size : 59MB

Description

HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs).

Usage

Pull (Download)

To download the latest version of hmmer run,

docker pull ghcr.io/autamus/hmmer:latest

or to download a specific version of hmmer run,

docker pull ghcr.io/autamus/hmmer:3.3.2

Run

To run the container as an application run,

docker run --rm ghcr.io/autamus/hmmer hmmer --version

or to run the container in an interactive session run,

docker run -it --rm ghcr.io/autamus/hmmer bash

Mounting volumes between the container and your machine

To access files from your machine within the hmmer container you’ll have to mount them using the -v external/path:internal/path option.

For example,

docker run -v ~/Documents/Data:/Data ghcr.io/autamus/hmmer hmmer /Data/myData.csv

which will mount the ~/Documents/Data directory on your computer to the /Data directory within the container.

HPC

If you’re looking to use this container in an HPC environment we recommend using Singularity-HPC to use the container just as any other module on the cluster. Check out the SHPC hmmer container here.