Readme:

Welcome! In this folder, you'll discover all the supplement ary files related to our research project titled "Evolution of Ion Channels in Cetaceans: A Natural Experiment in the T ree of Life."

Contained within the "Scripts_Cetacean_Evolution_March2024" directory are two essential files: the pipeline file and a script folder. Within the pipeline file, you'll find detail ed steps and commands that we utilized to execute various s oftware tools essential to our study and in the script fold er there are three folders containing every script used in our pipeline for processing and creating files that are use d as input files for TMHMM, Rps-blast, Pal2nal and PAML, as well as scripts used in CAFE. The folders are named accordi ng to the step in which you should use them, and in the Pip eline file, you can read the description of when and how to use them.

Within the "Supplementary_Table_S1.xlsx" file, you can find the identified Ion channels for each organism included in o ur study and a summary Tab at the end of it.

Inside the "Supplementary_Table_S2_to_S5" file, you'll disc over results generated by the Enrichr software. Table S2 pr esents enriched categories linked to the heart, S3 focuses on locomotion, S4 on visual aspects, and S5 on neurological findings.