Cactus is a reference-free whole-genome multiple alignment program. The principal algorithms are described here: https://doi.org/10.1101/gr.123356.111
Usage
1| 3 | cactus/1.2.3 |
| 1.3.0 | cactus/1 |
Command line option to run cactus
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cactus <jobStorePath> <seqFile> <outputHal> --binariesMode singularity --maxCores <number of cpus> |
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| language | bash |
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| title | Example: /share/Apps/examples/cactus |
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| collapse | true |
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#!/bin/bash
#SBATCH -p debug
#SBATCH -n 16
#SBATCH -N 1
#SBATCH -t 90
#SBATCH -J cactus
module load cactus/1.3.0
cd ${SLURM_SUBMIT_DIR}
cactus jobStore examples/evolverMammals.txt examples/evolverMammals.hal --root mr --binariesMode singularity --maxCores ${SLURM_NTASKS} |
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More Information: https:/share/Appsgithub.com/examplesComparativeGenomicsToolkit/cactus