blast2galaxy Documentation

• blast2galaxy provides a Python API and CLI to perform BLAST+ and DIAMOND queries against Galaxy servers that have the NCBI BLAST+ tools [1] and/or DIAMOND [2] installed

• It is available as:

  • PyPI package (pip)
  • Bioconda package
  • Biocontainers image

• blast2galaxy is tested to be working with the following Python versions: 3.10, 3.11, 3.12

• Please read the CLI Reference if you want to use blast2galaxy on the command line as drop-in replacement for NCBI BLAST+ tools or DIAMOND or read the API Reference if you want to use blast2galaxy inside a Python application to perform BLAST or DIAMOND queries against a Galaxy server.

References

[1] Peter J. A. Cock, John M. Chilton, Björn Grüning, James E. Johnson, Nicola Soranzo, NCBI BLAST+ integrated into Galaxy, GigaScience, Volume 4, Issue 1, December 2015, s13742-015-0080-7, https://doi.org/10.1186/s13742-015-0080-7

[2] Buchfink, B., Reuter, K. & Drost, HG. Sensitive protein alignments at tree-of-life scale using DIAMOND. Nat Methods 18, 366–368 (2021). https://doi.org/10.1038/s41592-021-01101-x