LMAP¶

Description¶

A package of user-friendly terminal/command-line and interactive applications developed in Perl, to enable the high-throughput analyses of multiple genes/datasets in PAML (codeml). LMAP was designed for the workstation multi-core environment and enables all the codeml codon substitutions models: site models, branch models, branch-site models and clade models.

Environment Modules¶

Run module spider lmap to find out what environment modules are available for this application.

Environment Variables¶

HPC_LMAP_DIR - installation directory
HPC_LMAP_BIN - executable directory
HPC_LMAP_DOC - documentation directory
HPC_LMAP_EXE - examples directory

Citation¶

If you publish research that uses lmap you have to cite it as follows:

Maldonado, E., Almeida, D., Escalona, T., Khan, I., Vasconcelos, V., & Antunes, A. (2016). LMAP: Lightweight multigene analyses in PAML. BMC Bioinformatics, 17, 354. https://doi.org/10.1186/s12859-016-1204-5

Categories¶

biology, phylogenetics