SOFT : SVMerge
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Site du soft: https://svmerge.sourceforge.net/
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LICENSE:
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GPL-v3

See software documentation for more informations.

Location: /usr/local/bioinfo/src/SVMerge
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Load binaries and environment:
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-> Version v1.2r37

#Need Pindel, BreakDancer, cnD, Python2, R, samtools-0.1.6, rdxplorer,bedtools, exonerate
module load bioinfo/Pindel/0.2.5b8 bioinfo/BreakDancer/1.1.2 bioinfo/cnD/1.3 devel/python/Python-2.7.18 statistics/R/4.2.2 bioinfo/samtools/0.1.6 bioinfo/RDXplorer/3.2 bioinfo/bedtools/2.18.0 bioinfo/Exonerate/2.2.0

module load bioinfo/SVMerge/1.2r37

Path to config example file (adapt with your data) : /usr/local/bioinfo/src/SVMerge/SVMerge-v1.2r37/example/example.config

(Compute farm not available for Slurm)

Example directory for use on cluster:
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/usr/local/bioinfo/src/SVMerge/example_on_cluster

To submit: sbatch test_SVMerge-v1.2r37.sh  (No data sample found in installation directory, so just some commands example.)

See software documentation and our FAQ (http://bioinfo.genotoul.fr/index.php/faq/) for more informations.