bio-0.4: A bioinformatics library Source code Contents Index

Bio.GFF3.FeatureHierSequences

Documentation

data FeatureHierSequences Source

Instances Show FeatureHierSequences

features :: FeatureHierSequences -> Set Feature Source

sequences :: FeatureHierSequences -> [Sequence a] Source

fromLists :: (Error e, MonadError e m) => [Feature] -> [Sequence a] -> m FeatureHierSequences Source

parse :: (Error e, MonadError e m) => ByteString -> m FeatureHierSequences Source

lookupId :: (Error e, MonadError e m) => FeatureHierSequences -> SeqName -> m Feature Source

parents :: FeatureHierSequences -> Feature -> [Feature] Source

children :: FeatureHierSequences -> Feature -> [Feature] Source

seqData :: (Error e, MonadError e m) => FeatureHierSequences -> SeqLoc -> m SeqData Source

getSequence :: (Error e, MonadError e m) => FeatureHierSequences -> SeqName -> m SeqData Source

featureSequence :: (Error e, MonadError e m) => FeatureHierSequences -> Feature -> m (Sequence a) Source

runGFF :: FilePath -> ErrorT String (Reader FeatureHierSequences) a -> ErrorT String IO a Source

runGFFIO :: FilePath -> ErrorT String (ReaderT FeatureHierSequences IO) a -> ErrorT String IO a Source

asksGFF :: (Error e, MonadError e m, MonadReader FeatureHierSequences m) => (FeatureHierSequences -> a -> m b) -> a -> m b Source

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