flappie 2.0.0-foss-2019a-Python-3.7.2Flip-flop basecaller for Oxford Nanopore reads
Accessing flappie 2.0.0-foss-2019a-Python-3.7.2
To load the module for flappie 2.0.0-foss-2019a-Python-3.7.2 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):
module load flappie/2.0.0-foss-2019a-Python-3.7.2
BEAR Apps Version
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.
RunnieRunnie is an experimental basecaller that works in 'run-length encoded' space. Basecalling using runnie is a two-stage process: firstly, a .run file is created containing the Run-Length Compressed (RLC) basecall, along information about the likely length of each run, then this is decoded into a fasta basecall. The executable
runnieperforms the initial RLC basecall, which is then processed by the
For more information visit the flappie website.
Last modified on 12th November 2019