Program, Pipeline Name or Method Name

Ortholog based Manual Annotations

Program, Pipeline or Method version

Orthofinder, custom bash scripts

Source Name

Baum/Severin Labs

Time Executed

Oct. 29, 2018, midnight

Category

Genes

Description

This essentially works by taking the primary isoforms from each species, (B. xylophilus, D. destructor, G. rostochiensis, G. ellingtonae, G. pallida, M. hapla, M. incognita, M. floridensis, M. arenaria, M. javanica, and H. glycines) and running them through orthofinder to find orthologs. This assigns each gene with orthology to an orthogroup. For each H.glycines gene in an orthogroup, the genes for every other species were used to extract annotation information. This information was counted by using exact annotation matches for each gene. Thus for Hetgly.G000012040, a total of 146 gene annotations were found and sorted by most abundant annotation type -- 104-No-Annotation,64-Zinc-finger,-FLYWCH-type,37-MULE-transposase-domain,4-Zinc-finger,-FLYWCH-type- method:InterPro-accession:IPR018289,1-PAZ-domain,1-TSC-22-/-Dip-/-Bun. This information was added to the gff annotation of the genome using the Note= attribute.

File

reworkedfunctionalaugustus_sorted_gff0.gz

Index

reworkedfunctionalaugustus_sorted_gff0.gz.tbi