RAxML-NG

De acordo com a página do RAxML-NG, “RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion. Its search heuristic is based on iteratively performing a series of Subtree Pruning and Regrafting (SPR) moves, which allows to quickly navigate to the best-known ML tree. RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the highly optimized likelihood computation implemented in libpll (Flouri et al. 2014). RAxML-NG offers improvements in speed, flexibility and user-friendliness over the previous RAxML versions. It also implements some of the features previously available in ExaML (Kozlov et al. 2015), including checkpointing and efficient load balancing for partitioned alignments (Kobert et al. 2014).”.

Versões Disponíveis

raxml-ng/1.0.3

Submissão de Jobs Seriais

Crie um arquivo chamado, por exemplo, submit_serial_jobs.sh:

#!/bin/bash
#SBATCH -t 24:00:00

export INPUT="test.fa"
export OUTPUT="test.fa.raxml.*"

module load raxml-ng/1.0.3

job-nanny raxml-ng --msa test.fa --model GTR+G

Para submeter o processo, basta usar o comando:

sbatch submit_serial_jobs.sh

Referências

Para informações adicionais sobre o software, consulte a página do RAxML-NG.