The BLAST jobs traditionally found in the PAP Functional Workflow have been tweaked. The BLASTp jobs were the reason that a functional flow took overnight to complete. As of PAP Functional Workflow v2020.07, BLASTp will no longer be run against Bacterial sequences in the NCBI nonredundant (nr) database. By removing BLASTp against all Bacteria (taxidLearn More…
Paper describing CPT Galaxy for phage annotation published
The CPT has been building the infrastructure and resources to be the world leaders in phage annotation using the open-source Galaxy and Apollo platforms since 2015. In our latest manuscript, published this week in PLOS Computational Biology, we describe in detail the tools and workflows that are the mainstays for all phage annotation efforts hereLearn More…
New Tool: Remove FASTA Sequences from .gff3 File
Ever need to use a program that takes a gff3 format, but can’t have the FASTA sequence at the end? With this tool, that problem is solved! Galaxy now has a simple tool to remove the FASTA sequence from the end of a gff3 file, making it a simple transition to pipe your gff3 intoLearn More…