All scripts and a number of useful files used in the manuscript - A population-genetic lens into the process of gene loss following whole-genome duplication - by Parul Johri, Jean-Francois Gout, Thomas G. Doak, Michael Lynch, are available here.
Please contact Parul at pjohri1@asu.edu if there are any questions.
Following are the versions of the assemblies that were used in this analysis:
P. tetraurelia -
P. biaurelia - biaurelia_V1-4_assembly_v1.fasta
P. sexaurelia - sexaurelia_AZ8-4_assembly_v1.fasta
P. caudatum - caudatum_43c3d_assembly_v1.fasta \
Following are the versions of the annotations that were used in this analysis:
P. tetraurelia - tetraurelia51_EuGene_annotation_edit.gff
P. biaurelia - biaurelia_V1-4_annotation_v1.gff3
P. sexaurelia - sexaurelia_AZ8-4_annotation_v1.gff3
P. caudatum - caudatum_43c3d_annotation_v1.gff3\