-- Hoogle documentation, generated by Haddock
-- See Hoogle, http://www.haskell.org/hoogle/


-- | Enumerator interface to SamTools library
--   
--   Enumerator interface to SamTools library
@package samtools-enumerator
@version 0.1

module Bio.SamTools.Enumerator

-- | Enumerate over the contents of a BAM/SAM alignment input handle
enumInHandle :: MonadIO m => InHandle -> Enumerator Bam1 m a

-- | Enumerate over the contents of a TAM (tab-delimited text) alignment
--   file
enumTam :: FilePath -> Enumerator Bam1 IO a

-- | Enumerate over the contents of a TAM file with a separate target
--   sequence index
enumTamWithIndex :: FilePath -> FilePath -> Enumerator Bam1 IO a

-- | Enumerate over the contents of a BAM (binary) alignment file
enumBam :: FilePath -> Enumerator Bam1 IO a

-- | Enumerate over the results of a query into a sorted, indexed BAM file
enumQuery :: Query -> Enumerator Bam1 IO a

-- | Enumerate over the reads in a region from an indexed BAM file input
--   handle
enumIndexRegion :: IdxHandle -> Int -> (Int64, Int64) -> Enumerator Bam1 IO a

-- | Enumerate over the reads in a region from a sorted, indexed BAM file
enumBamRegion :: FilePath -> ByteString -> (Int64, Int64) -> Enumerator Bam1 IO a
iterHandle :: OutHandle -> Iteratee Bam1 IO ()