TL;DR
Generate a MUSCLE Alignment based on either a Folder with Fasta files or NCBI Search Criteria and then output three (3) statistically supported trees: Neighbor Joining, Consensus Bootstrap, and the IQ-Tree output. A GUI will load in window where you can toggle between the three (3) options:
Compile as Folder with ONLY FASTA files in it
Search NCBI for a GENE AND ORGANISM and RETURN MAX RECORDS for compilation
Load an already generated sequence file or multiple sequence alignment (MSA) for tree generation
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