Biobase.Infernal.Hit

Accessors for Infernal hits.

TODO modelStartStop pair? same for target?

TODO newtypes for these returns?

Documentation

class Hit a where

Generalized accessors for VerboseHit's and TabularHit's.

Methods

model :: a -> ModelIdentification

Model name (like 5S_rRNA).

target :: a -> Scaffold

Target name, typically the scaffold or chromosome where the hit occurs.

modelStart :: a -> Int

Start of submodel.

modelStop :: a -> Int

Stop of submodel.

targetStart :: a -> Int

Start of substring in target.

targetStop :: a -> Int

Stop of substring in target.

bitScore :: a -> BitScore

Bit score of the hit of model in target.

evalue :: a -> Double

Evalue, expectation of bit score of higher in target sequence of length.

gcPercent :: a -> Int

G/C content in target.

Instances

Hit VerboseHit

Generalized accessors.

Hit TabularHit

Generalized accessors.