bali-phy
Link to section 'Introduction' of 'bali-phy' Introduction
Bali-phy is a tool for bayesian co-estimation of phylogenies and multiple alignments via MCMC.
BioContainers: https://biocontainers.pro/tools/bali-phy
Home page: https://github.com/bredelings/BAli-Phy
Link to section 'Versions' of 'bali-phy' Versions
- 3.6.0
Link to section 'Commands' of 'bali-phy' Commands
- bali-phy
Link to section 'Module' of 'bali-phy' Module
You can load the modules by:
module load biocontainers
module load bali-phy
Link to section 'Example job' of 'bali-phy' Example job
Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.
To run bali-phy on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=bali-phy
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers bali-phy
bali-phy examples/sequences/ITS/ITS1.fasta 5.8S.fasta ITS2.fasta --test
bali-phy examples/sequences/5S-rRNA/5d-clustalw.fasta -S gtr+Rates.gamma[4]+inv -n 5d-free