Man pages for kylebittinger/ecofuncs
Simple functions for community ecology

alt_gowerAlternate Gower distance
berger_parker_dBerger-Parker dominance
bray_curtisBray-Curtis distance
brillouin_dBrillouin index
canberraCanberra distance
caoCao index of dissimilarity
chao1Chao1 index
chebyshevChebyshev distance
chordChord distance
clark_coefficient_of_divergenceClark's coefficient of divergence
correlationCorrelation distance
cosineCosine distance
dist_longCompute distances on data in long format
dominanceDominance
doublesNumber of doubletons
ecofuncs_alphaAll alpha diversity measures
ecofuncs_betaAll beta-diversity measures
enspieENS diversity
etsy_ciEtsy's confidence interval
euclideanEuclidean distance
fisher_alphaFisher's alpha parameter
generalized_unifracGeneralized UniFrac distance
geodisc_metricGeodisc metric
goods_coverageGood's coverage of counts
gowerGower distance
hammingHamming distance
heip_eHeip's evenness measure
hellingerHellinger distance
helloHello, World!
information_unifracInformation UniFrac distance
invsimpsonInverse Simpson
jaccardJaccard index of dissimilarity
kempton_taylor_qKempton-Taylor Q index
kulczynskiKulczynski distance
kulczynski_codyKulczynski-Cody distance
kulczynski_mothurKulczynski distance (Mothur implementation)
kulczynski_scipyKulczynski distance (scipy implementation)
manhattanManhattan or city block distance
margalefMargalef's richness index
mcintosh_dMcIntosh dominance index D
mcintosh_eMcIntosh's evenness measure E
mean_character_differenceMean character difference
menhinickMenhinick's richness index
millarBinomial index of dissimilarity
minkowskiMinkowski distance
modified_mean_character_differenceModified mean character difference
morisitaMorisita index of dissimilarity
morisita_hornMorisita-Horn index of dissimilarity
pielou_ePielou's Evenness index J
richnessRichness
rms_distanceRoot-mean-square distance
robbinsRobbins' estimator for the probability of unobserved outcomes
rogers_tanimotoRogers-Tanimoto distance
russel_raoRussel-Rao distance
shannonShannon diversity
simpsonSimpson's index
simpson_eSimpson's evenness index
singlesNumber of singletons
sokal_michenerSokal-Michener distance
sokal_sneathSokal-Sneath distance
sorensonSorenson or Dice index of dissimilarity
spread_to_numeric_matrixConvert a data frame in long format to a numeric matrix
strongStrong's dominance index
unweighted_unifracUnweighted UniFrac distance
variance_adjusted_unifracVariance-adjusted UniFrac distance
weighted_normalized_unifracWeighted normalized UniFrac distance
weighted_unifracWeighted UniFrac distance
whittakerWhittaker index of dissimilarity
yuleYule distance
kylebittinger/ecofuncs documentation built on March 16, 2019, 7:21 p.m.