BEAR Applications

flappie 1.1.0-foss-2018b

Unsupported: Use of this version of flappie is not supported. More information on our Applications Support and Retention Policy.

There is a newer version of flappie

Flip-flop basecaller for Oxford Nanopore reads

Accessing flappie 1.1.0-foss-2018b

To load the module for flappie 1.1.0-foss-2018b please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load bear-apps-unsupported/handbuilt/2019
module load flappie/1.1.0-foss-2018b

BEAR Apps Version

2019h

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 executable runnie 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/2018b HDF5/1.10.2-foss-2018b

Other Versions

These versions of flappie 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.

Last modified on 4th June 2019