Commands used to perform gene prediction using augustus on genomic assemblies of 8 Fusarium genomes. Following gene prediction signal p[eptides are predicted. These predictions are searched for RxLR motifs. Sequences containing both SigPs and RxLRs are concatenated into a single file and blasted against themselves to identify homologs. This list is then blasted against the 8 genomes to identify presence/absence in genomes.
Simple perl script to rename accessions in fasta files by their organism and strain names as designated by the directory structure.