panaroo¶
read2tree is a software tool that allows you to obtain alignment matrices for tree inference. For this purpose it makes use of the OMA database and a set of reads. Its strength lies in the fact that it bipasses the several standard steps when obtaining such a matrix in regular analysis. These steps are read filtereing, assembly, gene prediction, gene annotation, all vs all comparison, orthology prediction, alignment and concatenation.
Environment Modules¶
Run module spider panaroo to find out what environment modules are available for this application.
System Variables¶
- HPC_READ2TREE_DIR - installation directory
- HPC_READ2TREE_BIN - executable directory