ABySS

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Description

ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads.

Availability

Freely available to users. Modules:

abyss-1.9.0
abyss-2.1.0
abyss-2.1.5

Use

module add abyss-2.1.5
abys-pe

Parallel use

abyss-pe np=8 #without mpi

Notice: This application supports parallel computing (MPI, OpenMP) which can have weird consequences. For more details about parallel computing visit the page How to compute/Parallelization.

module add openmpi-2.1.1-intel
#module add openmpi-2.1.1-gcc
mpirun -np 8 ABYSS-P --help

Version 2.1.5 was compiled with openmpi-3.1.2-gcc!

Licence

GNU GPL v3

Documentation

https://github.com/bcgsc/abyss

Program manager

meta@cesnet.cz

Homepage

http://www.bcgsc.ca/platform/bioinfo/software/abyss