Bali-phy

Category(ies): Bioinformatics

Version: 1.9.8

Author / Distributor:

Ben Redelings, Marc Suchard (UCLA)

Description:

A Bayesian method for simultaneously calculating sequence alignments and phylogenies.

altix: running program | Documentation | Installation | System

Running Program:

For test:

mkdir bali-phytest
cd bali-phytest
cp -r /usr/local/bali-phy/Data/ ./
bali-phy Data/5S-rRNA/5d.fasta >out 2>err
less err
less out

where bali-phytest is a folder you create for your work, you can give any name of it and 5d.fasta is a fasta sample file.

"less err" to check any err
"less out" to check result

Attention: bali-phy only accepts fasta file without space line between sequence.

Documentation: http://www.biomath.medsch.ucla.edu/~msuchard/bali-phy/documentation.php

Installation:

Source code downloaded from Bayesian Alignment and Phylogeny estimation
Compiled by gcc

System(s): Unix

inQuiry: not available at inQuiry

pcluster: Not available on pcluster

rcluster, IOB: running program | Documentation | Installation | System

Running Program: also refer to submit jobs to queues at rcluster,IOB

e.x.

mkdir bali-phytest
cd bali-phytest
cp -r /usr/local/bali-phy/Data/ ./
bsub -q queueName bali-phy Data/5S-rRNA/5d.fasta >out 2>err

where bali-phytest is a folder you create for your work, you can give any name of it and 5d.fasta is a fasta sample file.

Documentation: Same as altix

Installation: Same as altix

System(s): Unix