Calculates and Analyzes the Proliferative Index

Provides functions for calculating and analyzing the proliferative index (PI) from an RNA-seq dataset. As described in Ramaker & Lasseigne, et al. bioRxiv, 2016 .

Simple Blinding Index for Randomized Controlled Trials

Computes a simple blinding index for randomized controlled trials introduced in Petroff, Bacak, Dagres, Dilk, Wachter: A simple blinding index for randomized controlled trials. Contemp Clin Trials Commun. 2024 Nov 26;42:101393. . PMID: 39686958.

H3 Geospatial Indexing System

A dependency free interface to the H3 geospatial indexing system utilizing the Rust library 'h3o' < https://github.com/HydroniumLabs/h3o> via the 'extendr' library < https://github.com/extendr/extendr>.

Computation of the Multivariate Marine Recovery Index

Computation of the multivariate marine recovery index, including functions for data visualization and ecological diagnostics of marine ecosystems. The computational details are described in the original publication. Reference: Chauvel, N., Grall, J., Thiébaut, E., Houbin, C., Pezy, J.P. (in press). "A general-purpose Multivariate Marine Recovery Index for quantifying the influence of human activities on benthic habitat ecological status". Ecological Indicators.

Calculate the Dutch Air Quality Index (LKI)

Calculates the dutch air quality index (LKI). This index was created on the basis of scientific studies of the health effects of air pollution. From these studies it can be deduced at what concentrations a certain percentage of the population can be affected. For more information see: < https://www.rivm.nl/bibliotheek/rapporten/2014-0050.pdf>.

Within Outlying Mean Indexes: Refining the OMI Analysis

Complementary indexes calculation to the Outlying Mean Index analysis to explore niche shift of a community and biological constraint within an Euclidean space, with graphical displays. For details see Karasiewicz et al. (2017) .

Index of Multiple Deprivation Data for the UK

Index of Multiple Deprivation for UK nations at various geographical levels. In England, deprivation data is for Lower Layer Super Output Areas, Middle Layer Super Output Areas, Wards, and Local Authorities based on data from < https://www.gov.uk/government/statistics/english-indices-of-deprivation-2019>. In Wales, deprivation data is for Lower Layer Super Output Areas, Middle Layer Super Output Areas, Wards, and Local Authorities based on data from < https://gov.wales/welsh-index-multiple-deprivation-full-index-update-ranks-2019>. In Scotland, deprivation data is for Data Zones, Intermediate Zones, and Council Areas based on data from < https://simd.scot>. In Northern Ireland, deprivation data is for Super Output Areas and Local Government Districts based on data from < https://www.nisra.gov.uk/statistics/deprivation/northern-ireland-multiple-deprivation-measure-2017-nimdm2017>. The 'IMD' package also provides the composite UK index developed by < https://github.com/mysociety/composite_uk_imd>.

Forward Selection using Concordance/C-Index

Performs forward model selection, using the C-index/concordance in survival analysis models.

Efficient Computations of Standard Clustering Comparison Measures

Implements an efficient O(n) algorithm based on bucket-sorting for fast computation of standard clustering comparison measures. Available measures include adjusted Rand index (ARI), normalized information distance (NID), normalized mutual information (NMI), adjusted mutual information (AMI), normalized variation information (NVI) and entropy, as described in Vinh et al (2009) . Include AMI (Adjusted Mutual Information) since version 0.1.2, a modified version of ARI (MARI), as described in Sundqvist et al. and simple Chi-square distance since version 1.0.0.

Calculate the Dendritic Connectivity Index in River Networks

Calculate and analyze ecological connectivity across the watercourse of river networks using the Dendritic Connectivity Index.