Data and scripts used in "A Comprehensive Analysis of the Phylogenetic Signal in Ramp Sequences in 247 Vertebrates"
By: Lauren McKinnon Email: laurenmckinnon77@gmail.com ######################
The directory "IdentifyRamps" contains all scripts and data used to identify ramps from dataset.
The directory "PresenceAbsencePhylogenies" contains all scripts and data used to create phylogenies using the presence and absence of ramp sequences.
The directory "RampRetentionIndices" contains all scripts and data used to calculate the retention index for ramp sequences, and it also contains the scripts for doing the permutations analysis.
The directory "ShortenedSequenceAnalysis" contains all scripts and data used to perform the control where the first 50 codons are removed from all genes.