bishoyh/minimap2 repository overview

Distroless Docker Image for Minimap2

Description:

This Docker image provides a minimal runtime environment for running minimap2, a versatile sequence alignment software designed for long-read sequencing data. By using a distroless base, the image is stripped of any unnecessary OS-level utilities and files, reducing the attack surface and potential vulnerabilities associated with traditional Linux distributions. Only the essential components required to run minimap2 are included, resulting in a lightweight, secure, and efficient container environment. The original minimap2 repository can be found here https://github.com/lh3/minimap2⁠.

Usage Scenarios:

• Bioinformatics Pipelines: Integrate the distroless Minimap2 image into bioinformatics workflows that require sequence alignment, especially those dealing with long-read sequences.

• Cloud Deployments: Utilize the image in cloud environments for scalable and efficient sequence alignment tasks.

• Research & Development: Employ the image in research environments where minimap2 is essential, benefiting from the lightweight and secure nature of a distroless container.

Examples:

• Test the image

docker run  bishoyh/minimap2:latest 

• Run minimap2

#mount current directory to /tmp ; then do a self alignment of test.fasta
docker run -v ./:/tmp  bishoyh/minimap2:latest -asm5 /tmp/test.fasta /tmp/test.fasta