Version: v1.0

Palmscan is software to detect viral polymerase palmprint barcode sequences in longer sequences such as virus genomes and ORFs. Palmprints can be used to classify RNA viruses.

PALMdb is a database of palmprint sequences generated by mining public databases with palmscan.

palmscan/
  src/               # Source code (C++)
  bin/               # Pre-built binaries for Linux and Windows
  motif_msas/        # Multiple alignments used to train PSSMs
  test/data          # Test data
  test/results       # Test results
  test/runtest.bash  # Script to run tests

Example command line:

palmscan -search_pp inputfile.fa -rt -rdrp -ppout pp.fa -report pp.txt -fevout pp.fev

Type palmscan -help for option details.

A. Babaian and R. C. Edgar (2021), Ribovirus classification by a polymerase barcode sequence (2021), biorxiv https://doi.org/10.1101/2021.03.02.433648