Showing 200 of total 413 results (show query)

ggobi

tourr:Tour Methods for Multivariate Data Visualisation

Implements geodesic interpolation and basis generation functions that allow you to create new tour methods from R.

Maintained by Dianne Cook. Last updated 17 days ago.

27.0 match 65 stars 11.17 score 426 scripts 9 dependents

r-forge

surveillance:Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena

Statistical methods for the modeling and monitoring of time series of counts, proportions and categorical data, as well as for the modeling of continuous-time point processes of epidemic phenomena. The monitoring methods focus on aberration detection in count data time series from public health surveillance of communicable diseases, but applications could just as well originate from environmetrics, reliability engineering, econometrics, or social sciences. The package implements many typical outbreak detection procedures such as the (improved) Farrington algorithm, or the negative binomial GLR-CUSUM method of Hoehle and Paul (2008) <doi:10.1016/j.csda.2008.02.015>. A novel CUSUM approach combining logistic and multinomial logistic modeling is also included. The package contains several real-world data sets, the ability to simulate outbreak data, and to visualize the results of the monitoring in a temporal, spatial or spatio-temporal fashion. A recent overview of the available monitoring procedures is given by Salmon et al. (2016) <doi:10.18637/jss.v070.i10>. For the retrospective analysis of epidemic spread, the package provides three endemic-epidemic modeling frameworks with tools for visualization, likelihood inference, and simulation. hhh4() estimates models for (multivariate) count time series following Paul and Held (2011) <doi:10.1002/sim.4177> and Meyer and Held (2014) <doi:10.1214/14-AOAS743>. twinSIR() models the susceptible-infectious-recovered (SIR) event history of a fixed population, e.g, epidemics across farms or networks, as a multivariate point process as proposed by Hoehle (2009) <doi:10.1002/bimj.200900050>. twinstim() estimates self-exciting point process models for a spatio-temporal point pattern of infective events, e.g., time-stamped geo-referenced surveillance data, as proposed by Meyer et al. (2012) <doi:10.1111/j.1541-0420.2011.01684.x>. A recent overview of the implemented space-time modeling frameworks for epidemic phenomena is given by Meyer et al. (2017) <doi:10.18637/jss.v077.i11>.

Maintained by Sebastian Meyer. Last updated 2 days ago.

cpp

14.3 match 2 stars 10.68 score 446 scripts 3 dependents

wilkox

ggfittext:Fit Text Inside a Box in 'ggplot2'

A 'ggplot2' extension to fit text into a box by growing, shrinking or wrapping the text.

Maintained by David Wilkins. Last updated 1 years ago.

ggplot2

8.3 match 306 stars 11.08 score 234 scripts 33 dependents

yang-tang

shinyjqui:'jQuery UI' Interactions and Effects for Shiny

An extension to shiny that brings interactions and animation effects from 'jQuery UI' library.

Maintained by Yang Tang. Last updated 1 years ago.

jquery-uishiny

7.7 match 276 stars 10.72 score 464 scripts 16 dependents

mikejohnson51

climateR:climateR

Find, subset, and retrive geospatial data by AOI.

Maintained by Mike Johnson. Last updated 3 months ago.

aoiclimatedatasetgeospatialgridded-climate-dataweather

9.0 match 187 stars 8.74 score 156 scripts 1 dependents

clementcalenge

adehabitatLT:Analysis of Animal Movements

A collection of tools for the analysis of animal movements.

Maintained by Clement Calenge. Last updated 6 months ago.

8.8 match 6 stars 8.60 score 370 scripts 12 dependents

trinker

wakefield:Generate Random Data Sets

Generates random data sets including: data.frames, lists, and vectors.

Maintained by Tyler Rinker. Last updated 5 years ago.

data-generationwakefield

9.4 match 256 stars 7.13 score 209 scripts

clementcalenge

adehabitatHR:Home Range Estimation

A collection of tools for the estimation of animals home range.

Maintained by Clement Calenge. Last updated 6 months ago.

7.4 match 6 stars 8.73 score 752 scripts 9 dependents

alanarnholt

BSDA:Basic Statistics and Data Analysis

Data sets for book "Basic Statistics and Data Analysis" by Larry J. Kitchens.

Maintained by Alan T. Arnholt. Last updated 2 years ago.

6.8 match 7 stars 9.11 score 1.3k scripts 6 dependents

davidgohel

ggiraph:Make 'ggplot2' Graphics Interactive

Create interactive 'ggplot2' graphics using 'htmlwidgets'.

Maintained by David Gohel. Last updated 3 months ago.

libpngcpp

3.6 match 819 stars 14.39 score 4.1k scripts 34 dependents

r4fun

hover:CSS Animations for 'shiny' Button Elements

A wrapper around a CSS library called 'Hover.css', intended for use in 'shiny' applications.

Maintained by Tyler Littlefield. Last updated 4 years ago.

cssshiny

12.4 match 16 stars 4.16 score 18 scripts

miguel-porto

SiMRiv:Simulating Multistate Movements in River/Heterogeneous Landscapes

Provides functions to generate and analyze spatially-explicit individual-based multistate movements in rivers, heterogeneous and homogeneous spaces. This is done by incorporating landscape bias on local behaviour, based on resistance rasters. Although originally conceived and designed to simulate trajectories of species constrained to linear habitats/dendritic ecological networks (e.g. river networks), the simulation algorithm is built to be highly flexible and can be applied to any (aquatic, semi-aquatic or terrestrial) organism, independently on the landscape in which it moves. Thus, the user will be able to use the package to simulate movements either in homogeneous landscapes, heterogeneous landscapes (e.g. semi-aquatic animal moving mainly along rivers but also using the matrix), or even in highly contrasted landscapes (e.g. fish in a river network). The algorithm and its input parameters are the same for all cases, so that results are comparable. Simulated trajectories can then be used as mechanistic null models (Potts & Lewis 2014, <DOI:10.1098/rspb.2014.0231>) to test a variety of 'Movement Ecology' hypotheses (Nathan et al. 2008, <DOI:10.1073/pnas.0800375105>), including landscape effects (e.g. resources, infrastructures) on animal movement and species site fidelity, or for predictive purposes (e.g. road mortality risk, dispersal/connectivity). The package should be relevant to explore a broad spectrum of ecological phenomena, such as those at the interface of animal behaviour, management, landscape and movement ecology, disease and invasive species spread, and population dynamics.

Maintained by Miguel Porto. Last updated 6 months ago.

animal-movementheterogeneous-landscapesmovement-ecologyriver-networkssimulation

8.4 match 15 stars 6.08 score 27 scripts 1 dependents

reside-ic

ids:Generate Random Identifiers

Generate random or human readable and pronounceable identifiers.

Maintained by Rich FitzJohn. Last updated 3 years ago.

3.3 match 94 stars 13.27 score 175 scripts 165 dependents

marce10

dynaSpec:Dynamic Spectrogram Visualizations

A set of tools to generate dynamic spectrogram visualizations in video format.

Maintained by Marcelo Araya-Salas. Last updated 16 days ago.

animal-soundsbioacousticsspectrogram

7.5 match 23 stars 5.50 score 34 scripts

devopifex

g2r:Interactive Grammar of Graphics

Interactive grammar of graphics.

Maintained by John Coene. Last updated 3 years ago.

visualization

8.3 match 119 stars 4.53 score 57 scripts

mhpob

otndo:Understand your OTN data

This package provides functions to summarize the various type of OTN-style data.

Maintained by Michael OBrien. Last updated 9 days ago.

animal-trackingbiotelemetryfishfisheriesvisualization

7.5 match 4 stars 4.92 score 6 scripts 1 dependents

marce10

NatureSounds:Animal Sounds for Bioacustic Analysis

Collection of example animal sounds for bioacoustic analysis.

Maintained by Marcelo Araya-Salas. Last updated 2 years ago.

bioacoustic-analysissound

5.5 match 2 stars 5.52 score 22 scripts 5 dependents

roaldarbol

anibehavr:Analyse Animal Behaviours

What the package does (one paragraph).

Maintained by Mikkel Roald-Arbøl. Last updated 10 months ago.

animal-behaviorbehavioural-statesdata-analysis

10.8 match 3 stars 2.78 score 2 scripts

zankrut20

selection.index:Analysis of Selection Index in Plant Breeding

The aim of most plant breeding programmes is simultaneous improvement of several characters. An objective method involving simultaneous selection for several attributes then becomes necessary. It has been recognised that most rapid improvements in the economic value is expected from selection applied simultaneously to all the characters which determine the economic value of a plant, and appropriate assigned weights to each character according to their economic importance, heritability and correlations between characters. So the selection for economic value is a complex matter. If the component characters are combined together into an index in such a way that when selection is applied to the index, as if index is the character to be improved, most rapid improvement of economic value is expected. Such an index was first proposed by Smith (1937 <doi:10.1111/j.1469-1809.1936.tb02143.x>) based on the Fisher's (1936 <doi:10.1111/j.1469-1809.1936.tb02137.x>) "discriminant function" Dabholkar (1999 <https://books.google.co.in/books?id=mlFtumAXQ0oC&lpg=PA4&ots=Xgxp1qLuxS&dq=elements%20of%20biometrical%20genetics&lr&pg=PP1#v=onepage&q&f=false>). In this package selection index is calculated based on the Smith (1937) selection index method.

Maintained by Zankrut Goyani. Last updated 5 months ago.

agricultureanimal-scienceplant-breedingrstudioselection-indexselection-indicessmith-selection-index

7.5 match 2 stars 4.00 score 5 scripts

coolbutuseless

isocubes:Voxel Rendering with Isometric Cubes

Visualising three-dimensional voxel data.

Maintained by Mike Cheng. Last updated 4 months ago.

5.3 match 67 stars 5.13 score 8 scripts

clementcalenge

adehabitatHS:Analysis of Habitat Selection by Animals

A collection of tools for the analysis of habitat selection.

Maintained by Clement Calenge. Last updated 6 months ago.

4.8 match 1 stars 4.77 score 51 scripts

mcandocia

keyToEnglish:Convert Data to Memorable Phrases

Convert keys and other values to memorable phrases. Includes some methods to build lists of words.

Maintained by Max Candocia. Last updated 4 years ago.

7.6 match 1 stars 2.70 score 3 scripts

djnavarro

jasmines:Generative Art

It doesn't do much, really.

Maintained by Danielle Navarro. Last updated 4 years ago.

4.0 match 112 stars 4.90 score 141 scripts

emilhvitfeldt

emoji:Data and Function to Work with Emojis

Contains data about emojis with relevant metadata, and functions to work with emojis when they are in strings.

Maintained by Emil Hvitfeldt. Last updated 5 months ago.

2.3 match 28 stars 7.97 score 304 scripts 3 dependents

bodkan

slendr:A Simulation Framework for Spatiotemporal Population Genetics

A framework for simulating spatially explicit genomic data which leverages real cartographic information for programmatic and visual encoding of spatiotemporal population dynamics on real geographic landscapes. Population genetic models are then automatically executed by the 'SLiM' software by Haller et al. (2019) <doi:10.1093/molbev/msy228> behind the scenes, using a custom built-in simulation 'SLiM' script. Additionally, fully abstract spatial models not tied to a specific geographic location are supported, and users can also simulate data from standard, non-spatial, random-mating models. These can be simulated either with the 'SLiM' built-in back-end script, or using an efficient coalescent population genetics simulator 'msprime' by Baumdicker et al. (2022) <doi:10.1093/genetics/iyab229> with a custom-built 'Python' script bundled with the R package. Simulated genomic data is saved in a tree-sequence format and can be loaded, manipulated, and summarised using tree-sequence functionality via an R interface to the 'Python' module 'tskit' by Kelleher et al. (2019) <doi:10.1038/s41588-019-0483-y>. Complete model configuration, simulation and analysis pipelines can be therefore constructed without a need to leave the R environment, eliminating friction between disparate tools for population genetic simulations and data analysis.

Maintained by Martin Petr. Last updated 12 days ago.

popgenpopulation-geneticssimulationsspatial-statistics

1.9 match 56 stars 9.15 score 88 scripts