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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)
Access the Political Science Replication Index from R
Search and browse the Political Science Replication Index (< https://jsakowuah.github.io/polisci-replication/>), a searchable, tagged index of replication packages crawled monthly from flagship political science journals' Harvard Dataverse collections, without leaving R. Provides functions to download and cache the index locally and to search and filter it by journal, method, data type, and year.
Superior Identification Index and Its Extensions
Calculate superior identification index and its extensions.
Measure the performance of journals based on how well they could
identify the top papers by any index (e.g. citation indices) according to Huang & Yang.
(2022)
Indexed 'tibble' and Methods for 'dplyr'
Provides extended data frames, with a special data frame column which contains two indexes, with potentially a nesting structure, and support for tibbles and methods for 'dplyr'.
Cohort Pathway Analysis with Pre-Index Event Support
Provides cohort pathway analysis for Observational Medical Outcomes Partnership (OMOP) Common Data Model databases, including both standard (post-index) and pre-index pathway analyses. The pre-index analysis identifies sequences of events occurring in a lookback window before the target cohort index date. Built on the 'CohortPathways' analysis framework originally developed by Christopher Knoll and the Observational Health Data Sciences and Informatics community through 'WebAPI'. Methodological background and the originating implementation are described in < https://github.com/OHDSI/CohortPathways>.
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)
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.
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.