R-universe search: pyramids

daphnegiorgi

IBMPopSim:Individual Based Model Population Simulation

Simulation of the random evolution of heterogeneous populations using stochastic Individual-Based Models (IBMs) <doi:10.48550/arXiv.2303.06183>. The package enables users to simulate population evolution, in which individuals are characterized by their age and some characteristics, and the population is modified by different types of events, including births/arrivals, death/exit events, or changes of characteristics. The frequency at which an event can occur to an individual can depend on their age and characteristics, but also on the characteristics of other individuals (interactions). Such models have a wide range of applications. For instance, IBMs can be used for simulating the evolution of a heterogeneous insurance portfolio with selection or for validating mortality forecasts. This package overcomes the limitations of time-consuming IBMs simulations by implementing new efficient algorithms based on thinning methods, which are compiled using the 'Rcpp' package while providing a user-friendly interface.

Maintained by Daphné Giorgi. Last updated 5 months ago.

cpp

21.6 match 8 stars 5.83 score 14 scripts

minatonakazawa

pyramid:Draw Population Pyramid

Drawing population pyramid using (1) data.frame or (2) vectors. The former is named as pyramid() and the latter pyramids(), as wrapper function of pyramid(). pyramidf() is the function to draw population pyramid within the specified frame.

Maintained by Minato Nakazawa. Last updated 6 years ago.

71.0 match 1.72 score 52 scripts

dmurdoch

plotrix:Various Plotting Functions

Lots of plots, various labeling, axis and color scaling functions. The author/maintainer died in September 2023.

Maintained by Duncan Murdoch. Last updated 1 years ago.

4.5 match 5 stars 11.31 score 9.2k scripts 361 dependents

musajajorge

popPyramid:Population Pyramids

Functions that facilitate the elaboration of population pyramids.

Maintained by Jorge L. C. Musaja. Last updated 2 years ago.

population pyramids

18.2 match 2.70 score 1 scripts

spatstat

spatstat.data:Datasets for 'spatstat' Family

Contains all the datasets for the 'spatstat' family of packages.

Maintained by Adrian Baddeley. Last updated 2 hours ago.

kernel-density point-process spatial-analysis spatial-data spatial-data-analysis spatstat statistical-analysis statistical-methods statistical-tests statistics

3.8 match 6 stars 11.00 score 186 scripts 228 dependents

nutriverse

nipnTK:National Information Platforms for Nutrition Anthropometric Data Toolkit

An implementation of the National Information Platforms for Nutrition or NiPN's analytic methods for assessing quality of anthropometric datasets that include measurements of weight, height or length, middle upper arm circumference, sex and age. The focus is on anthropometric status but many of the presented methods could be applied to other variables.

Maintained by Ernest Guevarra. Last updated 5 months ago.

anthropometry data-quality nipn nutrition

5.3 match 5 stars 5.92 score 28 scripts 1 dependents

cran

epiDisplay:Epidemiological Data Display Package

Package for data exploration and result presentation. Full 'epicalc' package with data management functions is available at '<https://medipe.psu.ac.th/epicalc/>'.

Maintained by Virasakdi Chongsuvivatwong. Last updated 3 years ago.

5.6 match 1 stars 5.44 score 758 scripts 2 dependents

andrisignorell

DescTools:Tools for Descriptive Statistics

A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'BigCamelCase' style was consequently applied to functions borrowed from contributed R packages as well.

Maintained by Andri Signorell. Last updated 9 days ago.

fortran cpp

1.8 match 87 stars 16.68 score 7.7k scripts 99 dependents

r4epi

apyramid:Visualize Population Pyramids Aggregated by Age

Provides a quick method for visualizing non-aggregated line-list or aggregated census data stratified by age and one or two categorical variables (e.g. gender and health status) with any number of values. It returns a 'ggplot' object, allowing the user to further customize the output. This package is part of the 'R4Epis' project <https://r4epis.netlify.app/>.

Maintained by Zhian N. Kamvar. Last updated 2 years ago.

4.8 match 20 stars 6.18 score 51 scripts 1 dependents

programgirl

PopulateR:Create Data Frames for the Micro-Simulation of Human Populations

Tools for constructing detailed synthetic human populations from frequency tables. Add ages based on age groups and sex, create households, add students to education facilities, create employers, add employers to employees, and create interpersonal networks.

Maintained by Michelle Gosse. Last updated 1 months ago.

7.0 match 1 stars 3.88 score

sigbertklinke

smvgraph:Visualization and Clustering of Data in a Shiny App

Various visualisations of univariate and multivariate graphs (e.g. mosaic diagram, scatterplot matrix, Andrews curves, parallel coordinate diagram, radar diagram and Chernoff plots) as well as clustering methods (e.g. k-means, agglomerative, EM clustering and DBSCAN) are implemented as a Shiny app. The app allows interactive changes, e.g. of the order of variables. It is intended for use in teaching.

Maintained by Sigbert Klinke. Last updated 2 years ago.

6.6 match 3.70 score

tylermorganwall

rayrender:Build and Raytrace 3D Scenes

Render scenes using pathtracing. Build 3D scenes out of spheres, cubes, planes, disks, triangles, cones, curves, line segments, cylinders, ellipsoids, and 3D models in the 'Wavefront' OBJ file format or the PLY Polygon File Format. Supports several material types, textures, multicore rendering, and tone-mapping. Based on the "Ray Tracing in One Weekend" book series. Peter Shirley (2018) <https://raytracing.github.io>.

Maintained by Tyler Morgan-Wall. Last updated 16 days ago.

libx11 cpp

2.3 match 630 stars 10.78 score 188 scripts 8 dependents

epiverse-trace

epiCo:Statistical and Viz Tools for Vector-Borne Diseases in Colombia

Provides statistical and visualization tools for the analysis of demographic indicators, and spatio-temporal behavior and characterization of outbreaks of vector-borne diseases (VBDs) in Colombia. It implements travel times estimated in Bravo-Vega C., Santos-Vega M., & Cordovez J.M. (2022), and the endemic channel method (Bortman, M. (1999) <https://iris.paho.org/handle/10665.2/8562>).

Maintained by Juan D. Umaña. Last updated 2 months ago.

colombia decision-support demographics epiverse outbreak-analysis sdg-3 spatio-temporal-analysis vector-borne-diseases

3.1 match 12 stars 6.94 score 8 scripts

epicentre-msf

epivis:Tools for visualising epidemiological data

Static visualisation of patient level linelist data.

Maintained by Paul Campbell. Last updated 5 months ago.

5.2 match 3 stars 4.13 score 3 scripts

rmheiberger

HH:Statistical Analysis and Data Display: Heiberger and Holland

Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.

Maintained by Richard M. Heiberger. Last updated 1 months ago.

3.2 match 3 stars 6.42 score 752 scripts 5 dependents

nenuial

geographer:Geography Vizualisations

Provides function and objects to establish vizualisations for my Geography lessons.

Maintained by Pascal Burkhard. Last updated 22 days ago.

7.3 match 1 stars 2.78 score

thomas-neitmann

ggcharts:Get You to Your Desired Plot Faster

Streamlines the creation of common charts by taking care of a lot of data preprocessing and plot customization for the user. Provides a high-level interface for creating plots using 'ggplot2'.

Maintained by Thomas Neitmann. Last updated 3 years ago.

data-visualization ggplot2 plots

2.3 match 291 stars 8.49 score 119 scripts 1 dependents

bisaloo

contactdata:Social Contact Matrices for 177 Countries

Data package for the supplementary data in Prem et al. (2017) <doi:10.1371/journal.pcbi.1005697> and Prem et al. <doi:10.1371/journal.pcbi.1009098>. Provides easy access to contact data for 177 countries, for use in epidemiological, demographic or social sciences research.

Maintained by Hugo Gruson. Last updated 3 months ago.

demographics epidemiology social-sciences

3.3 match 9 stars 5.65 score 11 scripts

hanase

bayesPop:Probabilistic Population Projection

Generating population projections for all countries of the world using several probabilistic components, such as total fertility rate and life expectancy (Raftery et al., 2012 <doi:10.1073/pnas.1211452109>).

Maintained by Hana Sevcikova. Last updated 22 days ago.

8.3 match 2.15 score 44 scripts

airpino

HistDAWass:Histogram-Valued Data Analysis

In the framework of Symbolic Data Analysis, a relatively new approach to the statistical analysis of multi-valued data, we consider histogram-valued data, i.e., data described by univariate histograms. The methods and the basic statistics for histogram-valued data are mainly based on the L2 Wasserstein metric between distributions, i.e., the Euclidean metric between quantile functions. The package contains unsupervised classification techniques, least square regression and tools for histogram-valued data and for histogram time series. An introducing paper is Irpino A. Verde R. (2015) <doi: 10.1007/s11634-014-0176-4>.

Maintained by Antonio Irpino. Last updated 1 years ago.

openblas cpp openmp

3.6 match 5 stars 4.75 score 75 scripts

charvey23

AvInertia:Calculate the Inertial Properties of a Flying Bird

Tools to compute the center of gravity and moment of inertia tensor of any flying bird. The tools function by modeling a bird as a composite structure of simple geometric objects. This requires detailed morphological measurements of bird specimens although those obtained for the associated paper have been included in the package for use. Refer to the vignettes and supplementary material for detailed information on the package function.

Maintained by Christina Harvey. Last updated 3 years ago.

3.3 match 6 stars 5.00 score 33 scripts

quicklizard99

cheddar:Analysis and Visualisation of Ecological Communities

Provides a flexible, extendable representation of an ecological community and a range of functions for analysis and visualisation, focusing on food web, body mass and numerical abundance data. Allows inter-web comparisons such as examining changes in community structure over environmental, temporal or spatial gradients.

Maintained by Lawrence Hudson. Last updated 8 months ago.

cpp

2.3 match 15 stars 6.86 score 195 scripts

mrc-ide

naomi:Naomi Model for Subnational HIV Estimates

This package implements the Naomi model for subnational HIV estimates.

Maintained by Jeff Eaton. Last updated 6 days ago.

cpp

1.9 match 9 stars 7.74 score 54 scripts 2 dependents

lindsayevanslee

whomds:Calculate Results from WHO Model Disability Survey Data

The Model Disability Survey (MDS) <https://www.who.int/activities/collection-of-data-on-disability> is a World Health Organization (WHO) general population survey instrument to assess the distribution of disability within a country or region, grounded in the International Classification of Functioning, Disability and Health <https://www.who.int/standards/classifications/international-classification-of-functioning-disability-and-health>. This package provides fit-for-purpose functions for calculating and presenting the results from this survey, as used by the WHO. The package primarily provides functions for implementing Rasch Analysis (see Andrich (2011) <doi:10.1586/erp.11.59>) to calculate a metric scale for disability.

Maintained by Lindsay Lee. Last updated 2 years ago.

2.0 match 4 stars 5.56 score 15 scripts

piecepackr

piecenikr:Looney Pyramid Graphics

Functions and objects to make Looney Pyramids graphics.

Maintained by Trevor L Davis. Last updated 10 months ago.

7.5 match 3 stars 1.48 score

cran

espadon:Easy Study of Patient DICOM Data in Oncology

Exploitation, processing and 2D-3D visualization of DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, in a patient-oriented perspective.

Maintained by Cathy Fontbonne. Last updated 1 months ago.

cpp

3.4 match 2.85 score

rapidsurveys

oldr:An Implementation of Rapid Assessment Method for Older People

An implementation of the Rapid Assessment Method for Older People or RAM-OP <https://www.helpage.org/resource/rapid-assessment-method-for-older-people-ramop-manual/>. It provides various functions that allow the user to design and plan the assessment and analyse the collected data. RAM-OP provides accurate and reliable estimates of the needs of older people.

Maintained by Ernest Guevarra. Last updated 1 months ago.

assessment data-analysis odk ram-op rapid-assessment

1.9 match 2 stars 5.00 score 4 scripts

cran

BAwiR:Analysis of Basketball Data

Collection of tools to work with European basketball data. Functions available are related to friendly web scraping, data management and visualization. Data were obtained from <https://www.euroleaguebasketball.net/euroleague/>, <https://www.euroleaguebasketball.net/eurocup/> and <https://www.acb.com/>, following the instructions of their respectives robots.txt files, when available. Box score data are available for the three leagues. Play-by-play data are also available for the Spanish league. Methods for analysis include a population pyramid, 2D plots, circular plots of players' percentiles, plots of players' monthly/yearly stats, team heatmaps, team shooting plots, team four factors plots, cross-tables with the results of regular season games, maps of nationalities, combinations of lineups, possessions-related variables, timeouts, performance by periods, personal fouls and offensive rebounds. Please see Vinue (2020) <doi:10.1089/big.2018.0124> and Vinue (2024) <doi:10.1089/big.2023.0177>.

Maintained by Guillermo Vinue. Last updated 30 days ago.

2.8 match 1 stars 3.15 score 35 scripts

truenomad

AgePopDenom:Model Fine-Scale Age-Structured Population Data using Open-Source Data

Automate the modelling of age-structured population data using survey data, grid population estimates and urban-rural extents.

Maintained by Mohamed A. Yusuf. Last updated 18 days ago.

1.8 match 1 stars 4.60 score 3 scripts

bioc

CellScore:Tool for Evaluation of Cell Identity from Transcription Profiles

The CellScore package contains functions to evaluate the cell identity of a test sample, given a cell transition defined with a starting (donor) cell type and a desired target cell type. The evaluation is based upon a scoring system, which uses a set of standard samples of known cell types, as the reference set. The functions have been carried out on a large set of microarray data from one platform (Affymetrix Human Genome U133 Plus 2.0). In principle, the method could be applied to any expression dataset, provided that there are a sufficient number of standard samples and that the data are normalized.

Maintained by Nancy Mah. Last updated 5 months ago.

geneexpression transcription microarray multiplecomparison reportwriting dataimport visualization

2.0 match 4.00 score 5 scripts

ealdrich

wavelets:Functions for Computing Wavelet Filters, Wavelet Transforms and Multiresolution Analyses

Contains functions for computing and plotting discrete wavelet transforms (DWT) and maximal overlap discrete wavelet transforms (MODWT), as well as their inverses. Additionally, it contains functionality for computing and plotting wavelet transform filters that are used in the above decompositions as well as multiresolution analyses.

Maintained by Eric Aldrich. Last updated 5 years ago.

1.6 match 4 stars 4.90 score 170 scripts 19 dependents

predictiveecology

map:Defines a meta class of geographical objects, the 'map' class, and associated tools

The 'map' class is a collection of geospatial objects (e.g., from the 'sp', 'raster', 'sf', and 'terra' packages), with a number of metadata additions to enable powerful methods, e.g., for leaflet, reproducible GIS etc.

Maintained by Alex M Chubaty. Last updated 1 months ago.

1.8 match 2 stars 4.33 score 178 scripts 1 dependents

guyabel

wcde:Download Data from the Wittgenstein Centre Human Capital Data Explorer

Download and plot education specific demographic data from the Wittgenstein Centre for Demography and Human Capital Data Explorer <http://dataexplorer.wittgensteincentre.org/>.

Maintained by Guy J. Abel. Last updated 1 years ago.

demography demograpic-data population-data

1.5 match 2 stars 4.26 score 18 scripts

trevorld

sbgjackets:Utilities for Small Box Game Jackets

Utilities for small box game jackets.

Maintained by Trevor L. Davis. Last updated 3 days ago.

print-and-play

1.8 match 2.30 score

maxwell-geospatial

geodl:Geospatial Semantic Segmentation with Torch and Terra

Provides tools for semantic segmentation of geospatial data using convolutional neural network-based deep learning. Utility functions allow for creating masks, image chips, data frames listing image chips in a directory, and DataSets for use within DataLoaders. Additional functions are provided to serve as checks during the data preparation and training process. A UNet architecture can be defined with 4 blocks in the encoder, a bottleneck block, and 4 blocks in the decoder. The UNet can accept a variable number of input channels, and the user can define the number of feature maps produced in each encoder and decoder block and the bottleneck. Users can also choose to (1) replace all rectified linear unit (ReLU) activation functions with leaky ReLU or swish, (2) implement attention gates along the skip connections, (3) implement squeeze and excitation modules within the encoder blocks, (4) add residual connections within all blocks, (5) replace the bottleneck with a modified atrous spatial pyramid pooling (ASPP) module, and/or (6) implement deep supervision using predictions generated at each stage in the decoder. A unified focal loss framework is implemented after Yeung et al. (2022) <https://doi.org/10.1016/j.compmedimag.2021.102026>. We have also implemented assessment metrics using the 'luz' package including F1-score, recall, and precision. Trained models can be used to predict to spatial data without the need to generate chips from larger spatial extents. Functions are available for performing accuracy assessment. The package relies on 'torch' for implementing deep learning, which does not require the installation of a 'Python' environment. Raster geospatial data are handled with 'terra'. Models can be trained using a Compute Unified Device Architecture (CUDA)-enabled graphics processing unit (GPU); however, multi-GPU training is not supported by 'torch' in 'R'.

Maintained by Aaron Maxwell. Last updated 8 months ago.

0.5 match 12 stars 6.98 score 20 scripts

fdzul

boldenr:boldenr: a package designed to generate of Dengue Bulletin of Veracruz state

This package contains functions designed specifically to generate graphs, tables, heatmap, maps and hotspots that allow designing the dengue bulletin of the state of Veracruz.

Maintained by The package maintainer. Last updated 11 months ago.

1.8 match 1 stars 1.81 score 13 scripts

dzhang777

SlideCNA:Calls Copy Number Alterations from Slide-Seq Data

This takes spatial single-cell-type RNA-seq data (specifically designed for Slide-seq v2) that calls copy number alterations (CNAs) using pseudo-spatial binning, clusters cellular units (e.g. beads) based on CNA profile, and visualizes spatial CNA patterns. Documentation about 'SlideCNA' is included in the the pre-print by Zhang et al. (2022, <doi:10.1101/2022.11.25.517982>). The package 'enrichR' (>= 3.0), conditionally used to annotate SlideCNA-determined clusters with gene ontology terms, can be installed at <https://github.com/wjawaid/enrichR> or with install_github("wjawaid/enrichR").

Maintained by Diane Zhang. Last updated 2 months ago.

1.7 match 1.70 score 3 scripts