Biobase.BLAST.Import

Parses NCBI BLAST+ tabular output

Documentation

blastCmdJSON2FromFile :: String -> IO (Either String BlastCmdJSON2)

reads and parses tabular Blast result from provided filePath

parseJSONBlast :: ByteString -> Either String BlastJSON2

blastFromFile :: String -> IO [BlastTabularResult]

reads and parses tabular Blast result from provided filePath

parseTabularBlasts :: ByteString -> [BlastTabularResult]

Read a lazy bytestring and stream out a lsit of BlastTabularResult's. In case, there is a parse error "late" in the file, we might have already streamed out some (or many!) of these results.

parseTabularHTTPBlasts :: ByteString -> [BlastTabularResult]

blastHTTPFromFile :: String -> IO [BlastTabularResult]

reads and parses tabular HTTP Blast result from provided filePath