Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step.
Availability and Restrictions
Versions
The following versions of bedtools are available on OSC clusters:
| Version | Owens | Pitzer |
|---|---|---|
| 0.22.1 | X* | X* |
| 0.22.3 | X | X |
* Current default version
You can use module spider bismark to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.
Access
Bismark is available to all OSC users. If you have any questions, please contact OSC Help.
Publisher/Vendor/Repository and License Type
Babraham Bioinformatics, GNU GPL v3
Usage
Usage on Owens
Set-up
To configure your environment for use of metilene, run the following command:
module load bismark. The default version will be loaded. To select a particular Bismark version, use module load bismark/version. For example, use module load bismark/0.22.1 to load Bismark 0.22.1.Usage on Pitzer
Set-up
To configure your environment for use of metilene, run the following command:
module load bismark. The default version will be loaded. To select a particular Bismark version, use module load bismark/version. For example, use module load bismark/0.22.1 to load Bismark 0.22.1.Further Reading
Service:
Fields of Science:
