Bio.BlastXML

Parse blast XML output.

If you use a recent version of NCBI BLAST and specify XML output (blastall -m 7), this module should be able to parse the result into a hierarchical BlastResult structure.

While the process may consume a bit of memory, the parsing is lazy, and file sizes of several gigabytes can be parsed (see e.g. the xml2x tool for an example). To parse XML, we use TagSoup.

Documentation

readXML :: FilePath -> IO BlastResult

Parse BLAST results in XML format

parseXML :: ByteString -> IO BlastResult

module Bio.BlastData