Biobase.Types.Accession

Accession with phantom types.

newtype Accession t

The accession number is a unique identifier in bioinformatics.

Depending on the source, accession numbers follow different alphanumeric formats! While letters-than-numbers is quite common, swissprot uses a mix. Hence, we just use a text string as accession.

A phantom type is provided to enable type safety annotations. Helper functions provide smart construction from the Accession tagged generic type.

Constructors

Accession

Fields

_getAccession :: Text

Instances

Eq (Accession t)

Ord (Accession t)

Read (Accession t)

Show (Accession t)

IsString (Accession t)

Generic (Accession t)

ToJSON (Accession t)

FromJSON (Accession t)

Binary (Accession t)

Serialize (Accession t)

Hashable (Accession t)

type Rep (Accession t)

accession :: Stringable s => s -> Accession t

tagAccession :: Accession f -> Accession t

NCBI phantom types

data Nucleotide

nucleotide sequence

data Protein

protein sequence

Rfam phantom types

data Clan

Tag as being a clan.

data Pfam

Tag as being a Pfam model.

data Rfam

Tag as being an Rfam model. Used for Stockholm and CM files.

data Species

Species have an accession number, too.