flappie 2.0.0-foss-2019a-Python-3.7.2
Flip-flop basecaller for Oxford Nanopore readsAccessing 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 and BEAR Cloud VMs):
📋
module load flappie/2.0.0-foss-2019a-Python-3.7.2
BEAR Apps Version
Architectures
EL8-icelake — EL8-sapphirerapids
The listed architectures consist of two parts: OS-CPU. The OS used 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.
Runnie
Runnie 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 executablerunnie
performs the initial RLC basecall, which is then processed by the python $EBROOTFLAPPIE/bin/decode_runnie.py
script.
More Information
For more information visit the flappie website.
Dependencies
This version of flappie has a direct dependency on: foss/2019a HDF5/1.10.5-gompi-2019a Python/3.7.2-GCCcore-8.2.0 SciPy-bundle/2019.03-foss-2019a
Other Versions
These versions of flappie are available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). These will be retained in accordance with our Applications Support and Retention Policy.
Version | BEAR Apps Version |
---|---|
1.1.0-foss-2018b | 2018b |
Last modified on 12th November 2019