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Seed Germination and Seedling Growth Indexes
Functions to calculate seed germination and seedling emergence and growth indexes. The main indexes for germination and seedling emergence, considering the time for seed germinate are: T10, T50 and T90, in Farooq et al. (2005) <10.1111/j.1744-7909.2005.00031.x>; and MGT, in Labouriau (1983). Considering the germination speed are: Germination Speed Index, in Maguire (1962), Mean Germination Rate, in Labouriau (1983); considering the homogeneity of germination are: Coefficient of Variation of the Germination Time, in Carvalho et al. (2005) <10.1590/S0100-84042005000300018>, and Variance of Germination, in Labouriau (1983); Uncertainty, in Labouriau and Valadares (1976)
Deficit Index (DI)
A set of utilities for calculating the Deficit (frailty) Index (DI) in gerontological studies.
The deficit index was first proposed by Arnold Mitnitski and Kenneth Rockwood
and represents a proxy measure of aging and also can be served as
a sensitive predictor of survival. For more information, see
(i)"Accumulation of Deficits as a Proxy Measure of Aging"
by Arnold B. Mitnitski et al. (2001),
The Scientific World Journal 1,
Regional Vulnerability Index
The Regional Vulnerability Index (RVI), a statistical measure of brain structural abnormality, quantifies an individual's similarity to the expected pattern (effect size) of deficits in schizophrenia (Kochunov P, Fan F, Ryan MC, et al. (2020)
Tools for Pre-Processing Emission-Excitation-Matrix (EEM) Fluorescence Data
Provides various tools for preprocessing Emission-Excitation-Matrix (EEM) for Parallel Factor Analysis (PARAFAC). Different methods are also provided to calculate common metrics such as humification index and fluorescence index.
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.
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)