There is a newer version of modbam2bedA program to aggregate modified base counts stored in a modified-base BAM (Section 2.1) file to a bedMethyl file.
Accessing modbam2bed 0.7.0-GCC-11.2.0
To load the module for modbam2bed 0.7.0-GCC-11.2.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):
module load bear-apps/2021b
module load modbam2bed/0.7.0-GCC-11.2.0
BEAR Apps Version
EL8-cascadelake — EL8-haswell — EL8-icelake
The listed architectures consist of two part: OS-CPU.
- BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
- BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.
For more information visit the modbam2bed website.
This version of modbam2bed has a direct dependency on: bzip2/1.0.8-GCCcore-11.2.0 GCC/11.2.0 HTSlib/1.14-GCC-11.2.0 libdeflate/1.8-GCCcore-11.2.0 zlib/1.2.11-GCCcore-11.2.0
These versions of modbam2bed are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.
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Last modified on 1st February 2023