Download : docker pull ghcr.io/autamus/pandaseq Compressed Size : 28MB
PANDASEQ is a program to align Illumina reads, optionally with PCR primers embedded in the sequence, and reconstruct an overlapping sequence.
To download the latest version of pandaseq run,
docker pull ghcr.io/autamus/pandaseq:latest
or to download a specific version of pandaseq run,
docker pull ghcr.io/autamus/pandaseq:2.11
To run the container as an application run,
docker run --rm ghcr.io/autamus/pandaseq pandaseq --version
or to run the container in an interactive session run,
docker run -it --rm ghcr.io/autamus/pandaseq bash
Mounting volumes between the container and your machine
To access files from your machine within the pandaseq container you’ll have to mount them using the
-v external/path:internal/path option.
docker run -v ~/Documents/Data:/Data ghcr.io/autamus/pandaseq pandaseq /Data/myData.csv
which will mount the
~/Documents/Data directory on your computer to the
/Data directory within the container.
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 pandaseq container here.