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Utilities.md

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PhyloToL 6 includes a set of stand-alone utility scripts that aim to increase the power of the analysis done with or without the core PhyloToL pipeline. We divide these scripts into five main categories: basic statistics, composition tools, MSA tools, gene tree description, and contamination removal. All utilities are written in Python and contain headers that provide information on usage. PhyloToL 6 includes a set of stand-alone utility scripts that aim to increase the power of the analysis done with or without the core PhyloToL pipeline. We divide these scripts into five main categories: assembly and fasta tools, sequence composition, MSA tools, gene tree descriptions and stand alone clade grabbing.
All utilities are written in Python and contain headers that provide information on usage.
A summary of some of the scripts is divided by category here A summary of some of the scripts is divided by category here