Biobase.Types.Energy

Different types of energies and conversion between.

TODO enthalpy TODO entropy

Documentation

newtype DG

Gibbs free energy change.

For RNA structure, the change in energy from the unfolded structure to the given structure.

In units of kcal / mol.

TODO shall we phantom-type the actual units?

Constructors

DG

Fields

• dG :: Double

Instances

Eq DG

Methods

(==) :: DG -> DG -> Bool

(/=) :: DG -> DG -> Bool

Fractional DG

Methods

(/) :: DG -> DG -> DG

recip :: DG -> DG

fromRational :: Rational -> DG

Data DG

Methods

gfoldl :: (forall d b. Data d => c (d -> b) -> d -> c b) -> (forall g. g -> c g) -> DG -> c DG

gunfold :: (forall b r. Data b => c (b -> r) -> c r) -> (forall r. r -> c r) -> Constr -> c DG

toConstr :: DG -> Constr

dataTypeOf :: DG -> DataType

dataCast1 :: Typeable (* -> *) t => (forall d. Data d => c (t d)) -> Maybe (c DG)

dataCast2 :: Typeable (* -> * -> *) t => (forall d e. (Data d, Data e) => c (t d e)) -> Maybe (c DG)

gmapT :: (forall b. Data b => b -> b) -> DG -> DG

gmapQl :: (r -> r' -> r) -> r -> (forall d. Data d => d -> r') -> DG -> r

gmapQr :: (r' -> r -> r) -> r -> (forall d. Data d => d -> r') -> DG -> r

gmapQ :: (forall d. Data d => d -> u) -> DG -> [u]

gmapQi :: Int -> (forall d. Data d => d -> u) -> DG -> u

gmapM :: Monad m => (forall d. Data d => d -> m d) -> DG -> m DG

gmapMp :: MonadPlus m => (forall d. Data d => d -> m d) -> DG -> m DG

gmapMo :: MonadPlus m => (forall d. Data d => d -> m d) -> DG -> m DG

Num DG

Methods

(+) :: DG -> DG -> DG

(-) :: DG -> DG -> DG

(*) :: DG -> DG -> DG

negate :: DG -> DG

abs :: DG -> DG

signum :: DG -> DG

fromInteger :: Integer -> DG

Ord DG

Methods

compare :: DG -> DG -> Ordering

(<) :: DG -> DG -> Bool

(<=) :: DG -> DG -> Bool

(>) :: DG -> DG -> Bool

(>=) :: DG -> DG -> Bool

max :: DG -> DG -> DG

min :: DG -> DG -> DG

Read DG

Methods

readsPrec :: Int -> ReadS DG

readList :: ReadS [DG]

readPrec :: ReadPrec DG

readListPrec :: ReadPrec [DG]

Show DG

Methods

showsPrec :: Int -> DG -> ShowS

show :: DG -> String

showList :: [DG] -> ShowS

Generic DG

Associated Types

type Rep DG :: * -> *

Methods

from :: DG -> Rep DG x

to :: Rep DG x -> DG

Hashable DG

Methods

hashWithSalt :: Int -> DG -> Int

hash :: DG -> Int

FromJSON DG

Methods

parseJSON :: Value -> Parser DG

parseJSONList :: Value -> Parser [DG]

ToJSON DG

Methods

toJSON :: DG -> Value

toEncoding :: DG -> Encoding

toJSONList :: [DG] -> Value

toEncodingList :: [DG] -> Encoding

Binary DG

Methods

put :: DG -> Put

get :: Get DG

putList :: [DG] -> Put

Serialize DG

Methods

put :: Putter DG

get :: Get DG

Default DG

Methods

def :: DG

NFData DG

Methods

rnf :: DG -> ()

Unbox DG

NumericalEpsilon DG

Methods

epsilon :: DG

NumericalExtremes DG

Methods

maxFinite :: DG

minFinite :: DG

maxExtreme :: DG

minExtreme :: DG

maxLarge :: DG

minLarge :: DG

Vector Vector DG

Methods

basicUnsafeFreeze :: PrimMonad m => Mutable Vector (PrimState m) DG -> m (Vector DG)

basicUnsafeThaw :: PrimMonad m => Vector DG -> m (Mutable Vector (PrimState m) DG)

basicLength :: Vector DG -> Int

basicUnsafeSlice :: Int -> Int -> Vector DG -> Vector DG

basicUnsafeIndexM :: Monad m => Vector DG -> Int -> m DG

basicUnsafeCopy :: PrimMonad m => Mutable Vector (PrimState m) DG -> Vector DG -> m ()

elemseq :: Vector DG -> DG -> b -> b

MVector MVector DG

Methods

basicLength :: MVector s DG -> Int

basicUnsafeSlice :: Int -> Int -> MVector s DG -> MVector s DG

basicOverlaps :: MVector s DG -> MVector s DG -> Bool

basicUnsafeNew :: PrimMonad m => Int -> m (MVector (PrimState m) DG)

basicInitialize :: PrimMonad m => MVector (PrimState m) DG -> m ()

basicUnsafeReplicate :: PrimMonad m => Int -> DG -> m (MVector (PrimState m) DG)

basicUnsafeRead :: PrimMonad m => MVector (PrimState m) DG -> Int -> m DG

basicUnsafeWrite :: PrimMonad m => MVector (PrimState m) DG -> Int -> DG -> m ()

basicClear :: PrimMonad m => MVector (PrimState m) DG -> m ()

basicSet :: PrimMonad m => MVector (PrimState m) DG -> DG -> m ()

basicUnsafeCopy :: PrimMonad m => MVector (PrimState m) DG -> MVector (PrimState m) DG -> m ()

basicUnsafeMove :: PrimMonad m => MVector (PrimState m) DG -> MVector (PrimState m) DG -> m ()

basicUnsafeGrow :: PrimMonad m => MVector (PrimState m) DG -> Int -> m (MVector (PrimState m) DG)

type Rep DG

type Rep DG = D1 (MetaData "DG" "Biobase.Types.Energy" "BiobaseTypes-0.1.3.0-7EMqsaldKh99G4UiC4Kzi1" True) (C1 (MetaCons "DG" PrefixI True) (S1 (MetaSel (Just Symbol "dG") NoSourceUnpackedness NoSourceStrictness DecidedLazy) (Rec0 Double)))

data Vector DG

data Vector DG = V_DG (Vector Double)

data MVector s DG

data MVector s DG = MV_DG (MVector s Double)

newtype DeltaDekaGibbs

round $ DG / 100.

Constructors

DekaG

Fields

• getDekaG :: Int

Instances

Eq DeltaDekaGibbs

Methods

(==) :: DeltaDekaGibbs -> DeltaDekaGibbs -> Bool

(/=) :: DeltaDekaGibbs -> DeltaDekaGibbs -> Bool

Num DeltaDekaGibbs

Methods

(+) :: DeltaDekaGibbs -> DeltaDekaGibbs -> DeltaDekaGibbs

(-) :: DeltaDekaGibbs -> DeltaDekaGibbs -> DeltaDekaGibbs

(*) :: DeltaDekaGibbs -> DeltaDekaGibbs -> DeltaDekaGibbs

negate :: DeltaDekaGibbs -> DeltaDekaGibbs

abs :: DeltaDekaGibbs -> DeltaDekaGibbs

signum :: DeltaDekaGibbs -> DeltaDekaGibbs

fromInteger :: Integer -> DeltaDekaGibbs

Ord DeltaDekaGibbs

Methods

compare :: DeltaDekaGibbs -> DeltaDekaGibbs -> Ordering

(<) :: DeltaDekaGibbs -> DeltaDekaGibbs -> Bool

(<=) :: DeltaDekaGibbs -> DeltaDekaGibbs -> Bool

(>) :: DeltaDekaGibbs -> DeltaDekaGibbs -> Bool

(>=) :: DeltaDekaGibbs -> DeltaDekaGibbs -> Bool

max :: DeltaDekaGibbs -> DeltaDekaGibbs -> DeltaDekaGibbs

min :: DeltaDekaGibbs -> DeltaDekaGibbs -> DeltaDekaGibbs

Read DeltaDekaGibbs

Methods

readsPrec :: Int -> ReadS DeltaDekaGibbs

readList :: ReadS [DeltaDekaGibbs]

readPrec :: ReadPrec DeltaDekaGibbs

readListPrec :: ReadPrec [DeltaDekaGibbs]

Show DeltaDekaGibbs

Methods

showsPrec :: Int -> DeltaDekaGibbs -> ShowS

show :: DeltaDekaGibbs -> String

showList :: [DeltaDekaGibbs] -> ShowS

Generic DeltaDekaGibbs

Associated Types

type Rep DeltaDekaGibbs :: * -> *

Methods

from :: DeltaDekaGibbs -> Rep DeltaDekaGibbs x

to :: Rep DeltaDekaGibbs x -> DeltaDekaGibbs

Hashable DeltaDekaGibbs

Methods

hashWithSalt :: Int -> DeltaDekaGibbs -> Int

hash :: DeltaDekaGibbs -> Int

FromJSON DeltaDekaGibbs

Methods

parseJSON :: Value -> Parser DeltaDekaGibbs

parseJSONList :: Value -> Parser [DeltaDekaGibbs]

ToJSON DeltaDekaGibbs

Methods

toJSON :: DeltaDekaGibbs -> Value

toEncoding :: DeltaDekaGibbs -> Encoding

toJSONList :: [DeltaDekaGibbs] -> Value

toEncodingList :: [DeltaDekaGibbs] -> Encoding

Binary DeltaDekaGibbs

Methods

put :: DeltaDekaGibbs -> Put

get :: Get DeltaDekaGibbs

putList :: [DeltaDekaGibbs] -> Put

Serialize DeltaDekaGibbs

Methods

put :: Putter DeltaDekaGibbs

get :: Get DeltaDekaGibbs

Default DeltaDekaGibbs

Methods

def :: DeltaDekaGibbs

NFData DeltaDekaGibbs

Methods

rnf :: DeltaDekaGibbs -> ()

Unbox DeltaDekaGibbs

NumericalExtremes DeltaDekaGibbs

Methods

maxFinite :: DeltaDekaGibbs

minFinite :: DeltaDekaGibbs

maxExtreme :: DeltaDekaGibbs

minExtreme :: DeltaDekaGibbs

maxLarge :: DeltaDekaGibbs

minLarge :: DeltaDekaGibbs

Vector Vector DeltaDekaGibbs

Methods

basicUnsafeFreeze :: PrimMonad m => Mutable Vector (PrimState m) DeltaDekaGibbs -> m (Vector DeltaDekaGibbs)

basicUnsafeThaw :: PrimMonad m => Vector DeltaDekaGibbs -> m (Mutable Vector (PrimState m) DeltaDekaGibbs)

basicLength :: Vector DeltaDekaGibbs -> Int

basicUnsafeSlice :: Int -> Int -> Vector DeltaDekaGibbs -> Vector DeltaDekaGibbs

basicUnsafeIndexM :: Monad m => Vector DeltaDekaGibbs -> Int -> m DeltaDekaGibbs

basicUnsafeCopy :: PrimMonad m => Mutable Vector (PrimState m) DeltaDekaGibbs -> Vector DeltaDekaGibbs -> m ()

elemseq :: Vector DeltaDekaGibbs -> DeltaDekaGibbs -> b -> b

MVector MVector DeltaDekaGibbs

Methods

basicLength :: MVector s DeltaDekaGibbs -> Int

basicUnsafeSlice :: Int -> Int -> MVector s DeltaDekaGibbs -> MVector s DeltaDekaGibbs

basicOverlaps :: MVector s DeltaDekaGibbs -> MVector s DeltaDekaGibbs -> Bool

basicUnsafeNew :: PrimMonad m => Int -> m (MVector (PrimState m) DeltaDekaGibbs)

basicInitialize :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> m ()

basicUnsafeReplicate :: PrimMonad m => Int -> DeltaDekaGibbs -> m (MVector (PrimState m) DeltaDekaGibbs)

basicUnsafeRead :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> Int -> m DeltaDekaGibbs

basicUnsafeWrite :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> Int -> DeltaDekaGibbs -> m ()

basicClear :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> m ()

basicSet :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> DeltaDekaGibbs -> m ()

basicUnsafeCopy :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> MVector (PrimState m) DeltaDekaGibbs -> m ()

basicUnsafeMove :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> MVector (PrimState m) DeltaDekaGibbs -> m ()

basicUnsafeGrow :: PrimMonad m => MVector (PrimState m) DeltaDekaGibbs -> Int -> m (MVector (PrimState m) DeltaDekaGibbs)

type Rep DeltaDekaGibbs

type Rep DeltaDekaGibbs = D1 (MetaData "DeltaDekaGibbs" "Biobase.Types.Energy" "BiobaseTypes-0.1.3.0-7EMqsaldKh99G4UiC4Kzi1" True) (C1 (MetaCons "DekaG" PrefixI True) (S1 (MetaSel (Just Symbol "getDekaG") NoSourceUnpackedness NoSourceStrictness DecidedLazy) (Rec0 Int)))

data Vector DeltaDekaGibbs

data Vector DeltaDekaGibbs = V_DeltaDekaGibbs (Vector Int)

data MVector s DeltaDekaGibbs

data MVector s DeltaDekaGibbs = MV_DeltaDekaGibbs (MVector s Int)