envi - Environmental Interpolation using Spatial Kernel Density Estimation

Estimates an ecological niche using occurrence data, covariates, and kernel density-based estimation methods. For a single species with presence and absence data, the 'envi' package uses the spatial relative risk function that is estimated using the 'sparr' package. Details about the 'sparr' package methods can be found in the tutorial: Davies et al. (2018) <doi:10.1002/sim.7577>. Details about kernel density estimation can be found in J. F. Bithell (1990) <doi:10.1002/sim.4780090616>. More information about relative risk functions using kernel density estimation can be found in J. F. Bithell (1991) <doi:10.1002/sim.4780101112>.

Last updated 5 months ago

ecological-nicheecological-niche-modellinggeospatialgeospatial-analysiskernel-density-estimationniche-modelingniche-modellingnon-euclidean-spacespoint-patternpoint-pattern-analysisprincipal-component-analysisspatial-analysisspecies-distribution-modelingspecies-distribution-modelling

4.22 score 1 stars 33 scripts 808 downloads

gateR - Flow/Mass Cytometry Gating via Spatial Kernel Density Estimation

Estimates statistically significant marker combination values within which one immunologically distinctive group (i.e., disease case) is more associated than another group (i.e., healthy control), successively, using various combinations (i.e., "gates") of markers to examine features of cells that may be different between groups. For a two-group comparison, the 'gateR' package uses the spatial relative risk function estimated using the 'sparr' package. Details about the 'sparr' package methods can be found in the tutorial: Davies et al. (2018) <doi:10.1002/sim.7577>. Details about kernel density estimation can be found in J. F. Bithell (1990) <doi:10.1002/sim.4780090616>. More information about relative risk functions using kernel density estimation can be found in J. F. Bithell (1991) <doi:10.1002/sim.4780101112>.

Last updated 1 years ago

cytometryflow-cytometrygatingkernel-density-estimationmass-cytometrynon-euclidean-spacesspatial-analysis

4.00 score 2 stars 6 scripts 389 downloads