docker

dockerfiles

These dockerfiles are related to bioinformatics software and basic environments, and most images are based on alpine:3.9. Mores refer to mydockerhub

R

from r-base , create some libraries.

Python

• python
• python-pip
• python-pip-libs

mapper

• minimap2
• ngmlr

svcaller

• sniffles

methylationcaller

• nanopolish(todo)

tools

• samtools
• bedtools

useful pipeline

• fastq_stat
• sv_annotation
• sv_report

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Tricks:

1. When installing some packages in docker container, you can check the related libs whether exits in alpinelinux.
2. docekr build -t image_name .
3. retry the software installation, by "docker run -it --name container_name image_name"
4. check the container, by "docker cp", to debug the target project.

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