Two new tools have been added to Proksee:

• VirSorter
  • Detect dsDNA and ssDNA virus genomes (phage).
  • Paper: VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses
• FastANI
  • Fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI).
  • Paper: High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries

A new tool has been added to Proksee:

• mobileOG-db
  • Find mobile genetic elements (MGEs) in your sequence grouped into 5 major categories: integration/excision, replication/recombination/repair, transfer, stability/transfer/defense, and phage-specific processes.
  • Paper: mobileOG-db: a Manually Curated Database of Protein Families Mediating the Life Cycle of Bacterial Mobile Genetic Elements

Proksee can now assembly your raw sequence reads into an assembled genome. Proksee Assemble is undergoing beta testing. To try it out click on the Reads tab on the New Project page.

If you have any problems or suggestions, let us know at Assembly Feedback.

A new tool has been added to Proksee:

• Alien Hunter
  • Predicts putative Horizontal Gene Transfer (HGT) events with the implementation of Interpolated Variable Order Motifs (IVOMs)
  • Paper: Interpolated variable order motifs for identification of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands

Two new tools have been added to Proksee:

• CRISPR/Cas Finder
  • Search for CRISPR Arrays and their associated (Cas) proteins.
  • Paper: CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins
• pLannotate
  • Annotate engineered plasmids. Sequences must be less 50,000 bp.
  • Paper: pLannotate: engineered plasmid annotation

A new Help page has been added and can be accessed from the Navigation bar.

In addition, help icons can be found throughout Proksee. Hovering over the icon will display a popup showing information pulled from the help page. Clicking on the help icon will open a new tab and take you directly to appropriate help section.

Maps can now be downloaded as SVG images:

Proksee was presented as a poster at the BioNet 2022 Conference.