lsasim - Functions to Facilitate the Simulation of Large Scale Assessment Data

Provides functions to simulate data from large-scale educational assessments, including background questionnaire data and cognitive item responses that adhere to a multiple-matrix sampled design. The theoretical foundation can be found on Matta, T.H., Rutkowski, L., Rutkowski, D. et al. (2018) <doi:10.1186/s40536-018-0068-8>.

Last updated 7 months ago

6.11 score 6 stars 18 scripts 671 downloads

TruncExpFam - Truncated Exponential Family

Handles truncated members from the exponential family of probability distributions. Contains functions such as rtruncnorm() and dtruncpois(), which are truncated versions of rnorm() and dpois() from the stats package that also offer richer output containing, for example, the distribution parameters. It also provides functions to retrieve the original distribution parameters from a truncated sample by maximum-likelihood estimation.

Last updated 2 months ago

truncated-distribution

4.95 score 5 scripts 381 downloads

cellmigRation - Track Cells, Analyze Cell Trajectories and Compute Migration Statistics

Import TIFF images of fluorescently labeled cells, and track cell movements over time. Parallelization is supported for image processing and for fast computation of cell trajectories. In-depth analysis of cell trajectories is enabled by 15 trajectory analysis functions.

Last updated 24 days ago

cellbiologydatarepresentationdataimportbioconductor-packagecell-trackingshinytrajectory-analysis

4.60 score 4 scripts 130 downloads

contingencytables - Statistical Analysis of Contingency Tables

Provides functions to perform statistical inference of data organized in contingency tables. This package is a companion to the "Statistical Analysis of Contingency Tables" book by Fagerland et al. <ISBN 9781466588172>.

Last updated 3 months ago

contingency-table

4.50 score 3 stars 1 packages 7 scripts 435 downloads

permChacko - Chacko Test for Order-Restriction with Permutation

Implements an extension of the Chacko chi-square test for ordered vectors (Chacko, 1966, <https://www.jstor.org/stable/25051572>). Our extension brings the Chacko test to the computer age by implementing a permutation test to offer a numeric estimate of the p-value, which is particularly useful when the analytic solution is not available.

Last updated 2 months ago

4.48 score 3 scripts 178 downloads

DIscBIO - A User-Friendly Pipeline for Biomarker Discovery in Single-Cell Transcriptomics

An open, multi-algorithmic pipeline for easy, fast and efficient analysis of cellular sub-populations and the molecular signatures that characterize them. The pipeline consists of four successive steps: data pre-processing, cellular clustering with pseudo-temporal ordering, defining differential expressed genes and biomarker identification. More details on Ghannoum et. al. (2021) <doi:10.3390/ijms22031399>. This package implements extensions of the work published by Ghannoum et. al. (2019) <doi:10.1101/700989>.

Last updated 1 years ago

biomarker-discoveryjupyter-notebookscrna-seqsingle-cell-analysistranscriptomics

4.38 score 12 stars 5 scripts 236 downloads

matlab2r - Translation Layer from MATLAB to R

Allows users familiar with MATLAB to use MATLAB-named functions in R. Several basic MATLAB functions are written in this package to mimic the behavior of their original counterparts, with more to come as this package grows.

Last updated 1 years ago

matlab

3.48 score 2 stars 1 packages 224 downloads

nutrition - Useful Functions for People on a Diet

Contains a collection of functions for performing different kinds of calculation that are of interest to someone following a diet plan. Calculators for the Basal Metabolic Rate are based on Mifflin et al. (1990) <doi:10.1093/ajcn/51.2.241> and McArdle, W. D., Katch, F. I., & Katch, V. L. (2010, ISBN:9780812109917).

Last updated 1 years ago

2.70 score 240 downloads

SparseFunClust - Sparse Functional Clustering

Provides a general framework for performing sparse functional clustering as originally described in Floriello and Vitelli (2017) <doi:10.1016/j.jmva.2016.10.008>, with the possibility of jointly handling data misalignment (see Vitelli, 2019, <doi:10.48550/arXiv.1912.00687>).

Last updated 2 years ago

2.00 score 2 scripts 128 downloads

simExam - Generate Simulated Data for IRT-Enabled Exams

Generates binary test data based on Item Response Theory using the two-parameter logistic model (Lord, 1980 <doi:10.4324/9780203056615>). Useful functions for test equating are included, e.g. functions for generating internal and external common items between test forms and a function to create a linkage plans between those forms. Ancillary functions for generating true item and person parameters as well as for calculating the probability of a person correctly answering an item are also included.

Last updated 5 years ago

2.00 score 103 downloads

EMJMCMC - Evolutionary Mode Jumping Markov Chain Monte Carlo Expert Toolbox

Implementation of the Mode Jumping Markov Chain Monte Carlo algorithm from Hubin, A., Storvik, G. (2018) <doi:10.1016/j.csda.2018.05.020>, Genetically Modified Mode Jumping Markov Chain Monte Carlo from Hubin, A., Storvik, G., & Frommlet, F. (2020) <doi:10.1214/18-BA1141>, Hubin, A., Storvik, G., & Frommlet, F. (2021) <doi:10.1613/jair.1.13047>, and Hubin, A., Heinze, G., & De Bin, R. (2023) <doi:10.3390/fractalfract7090641>, and Reversible Genetically Modified Mode Jumping Markov Chain Monte Carlo from Hubin, A., Frommlet, F., & Storvik, G. (2021) <doi:10.48550/arXiv.2110.05316>, which allow for estimating posterior model probabilities and Bayesian model averaging across a wide set of Bayesian models including linear, generalized linear, generalized linear mixed, generalized nonlinear, generalized nonlinear mixed, and logic regression models.

Last updated 7 months ago

1.46 score 29 scripts 130 downloads