It is flexible in style, compact in size, efficient in random access and is the format in which alignments. home/yourdirectory stores your files, and it is mounted into /mnt inside docker containers. Summary: The Sequence Alignment/Map (SAM) format is a generic alignment format for storing read alignments against reference sequences, supporting short and long reads (up to 128 Mbp) produced by different sequencing platforms. How to use this samtools from this image?ĭocker run -v /home/yourdirectory:/mnt zhengh42/samtools:1.5all samtools view /mnt/yourfiles zip file into toolshed and install this tool through terminal command. Remove containers created by a specific imageĭocker ps -a | grep 'my_image' | awk 'ĭocker build -f samtools/1.5all/Dockerfile -t zhengh42/samtools:1.5all samtools/1.5allĪfter that, an image named “zhengh42/samtools” would appear if we run docker images. This may means I do not install samtools, thus I download samtools and put this. How to install samtools ubuntu package on Ubuntu 20.04/Ubuntu 18.04/Ubuntu 19.04/Ubuntu 16.04 - Server Hosting Control Panel - Manage Your Servers. Remove a container (only stopped containers can be removed)ĭocker ps -aq -f status=exited -no-trunc | xargs docker rmĭocker images -q -filter dangling=true | xargs docker rmi The latest versioned release can be downloaded from The most up to date (development) version of BCFtools can be obtained from github as described here.
Quit from a container with interactive bash shell View the Project on GitHub samtools/bcftools Download This is the official development repository for BCFtools. The -it instructs Docker to allocate a pseudo-TTY connected to the container’s stdin creating an interactive bash shell in the container.
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