| Safe Haskell | None |
|---|---|
| Language | Haskell98 |
Math.Diversity.Diversity
Description
Collection of functions pertaining to finding the diversity of samples.
- hamming :: String -> String -> Int
- richness :: (Ord a, Ord b) => Map (a, b) c -> Int
- diversity :: Ord a => Double -> [a] -> Double
- diversityOfMap :: Ord a => Double -> Map a Int -> Double
- chao1 :: Ord a => Map a Int -> Double
- chao2 :: (Ord a, Ord b) => Map (a, b) Int -> Double
- rarefactionCurve :: Bool -> Int -> Integer -> Integer -> Integer -> Map (Sample, Fragment) Int -> IO [(Int, (Double, Double))]
- rarefactionSampleCurve :: Bool -> Int -> Int -> Int -> Map (Sample, Fragment) Int -> IO [(Int, (Double, Double))]
- rarefactionViable :: [Double] -> Double
- individualG :: Double -> Map (Sample, Fragment) Int -> Double
- sampleG :: Double -> Map (Sample, Fragment) Int -> Double
- minRarefaction :: Bool -> Bool -> Int -> Map (Sample, Fragment) Int -> Double -> Int -> IO Int
Documentation
diversityOfMap :: Ord a => Double -> Map a Int -> Double Source
Returns the diversity of a map of the species and how many times it appears
chao1 :: Ord a => Map a Int -> Double Source
Returns the chao1 estimator of a map of the species and how many times it appears
chao2 :: (Ord a, Ord b) => Map (a, b) Int -> Double Source
Returns the chao2 estimator of a map of the sample labeled species (sample, species) and how many times it appears. This will calculate the overlap for you, so if you don't have the number of times it appears it does not matter, you can set it to 1 and get the same result as it's all about overlapping samples.
rarefactionCurve :: Bool -> Int -> Integer -> Integer -> Integer -> Map (Sample, Fragment) Int -> IO [(Int, (Double, Double))] Source
Returns the rarefaction curve for each position in a list
rarefactionSampleCurve :: Bool -> Int -> Int -> Int -> Map (Sample, Fragment) Int -> IO [(Int, (Double, Double))] Source
Returns the rarefaction curve for each position in a list
rarefactionViable :: [Double] -> Double Source
Calculates the percent of the curve that is above 95% of height of the curve
individualG :: Double -> Map (Sample, Fragment) Int -> Double Source
Returns the number of individuals needed to get the proportion g of the estimated total richness of the assemblage. Sobs / Sest < g < 1