Refmaker
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Description
REFMAKER is a command-line and user-friendly pipeline providing different tools to create nuclear references from genomic assemblies of shotgun libraries.
Environment Modules
Run module spider refmaker to find out what environment modules are available for this application.
System Variables
- HPC_REFMAKER_DIR - installation directory
- HPC_REFMAKER_BIN - executable directory
- HPC_REFMAKER_REPO - repository directory
Additional Information
A default parameter_file is available at $HPC_REFMAKER_REPO/parameter.txt. Users should make a personal copy of this file to change parameters.
Citation
If you publish research that uses refmaker you have to cite it as follows:
Pouchon, C., Boluda, C.G. (2023) REFMAKER: Make your own reference to target nuclear loci in low coverage genome skimming libraries. Phylogenomic application in Sapotaceae. Molecular Phylogenetics and Evolution, 186, 107826. https://doi.org/10.1016/j.ympev.2023.107826.