R-universe search: dice

njlyon0

dndR:Dungeons & Dragons Functions for Players and Dungeon Masters

The goal of 'dndR' is to provide a suite of Dungeons & Dragons related functions. This package is meant to be useful both to players and Dungeon Masters (DMs). All functions currently focus on Fifth Edition (a.k.a. "5e") but once the next edition is published functions will likely be expanded to include any rule changes.

Maintained by Nicholas Lyon. Last updated 10 months ago.

data-science dungeons-and-dragons ttrpg

27.8 match 17 stars 6.98 score 16 scripts

rolkra

tidydice:Simulates Dice Rolls and Coin Flips

Utils for basic statistical experiments, that can be used for teaching introductory statistics. Each experiment generates a tibble. Dice rolls and coin flips are simulated using sample(). The properties of the dice can be changed, like the number of sides. A coin flip is simulated using a two sided dice. Experiments can be combined with the pipe-operator.

Maintained by Roland Krasser. Last updated 2 years ago.

30.3 match 6 stars 4.94 score 29 scripts

bioc

goSorensen:Statistical inference based on the Sorensen-Dice dissimilarity and the Gene Ontology (GO)

This package implements inferential methods to compare gene lists in terms of their biological meaning as expressed in the GO. The compared gene lists are characterized by cross-tabulation frequency tables of enriched GO items. Dissimilarity between gene lists is evaluated using the Sorensen-Dice index. The fundamental guiding principle is that two gene lists are taken as similar if they share a great proportion of common enriched GO items.

Maintained by Pablo Flores. Last updated 5 months ago.

annotation go genesetenrichment software microarray pathways geneexpression multiplecomparison graphandnetwork reactome clustering kegg

22.0 match 4.56 score 12 scripts

cran

dice:Calculate probabilities of various dice-rolling events

This package provides utilities to calculate the probabilities of various dice-rolling events, such as the probability of rolling a four-sided die six times and getting a 4, a 3, and either a 1 or 2 among the six rolls (in any order); the probability of rolling two six-sided dice three times and getting a 10 on the first roll, followed by a 4 on the second roll, followed by anything but a 7 on the third roll; or the probabilities of each possible sum of rolling five six-sided dice, dropping the lowest two rolls, and summing the remaining dice.

Maintained by Dylan Arena. Last updated 10 years ago.

64.1 match 1.54 score

gennaro-tedesco

Rdice:A Collection of Functions to Experiment Dice Rolls

A collection of functions to simulate dice rolls and the like. In particular, experiments and exercises can be performed looking at combinations and permutations of values in dice rolls and coin flips, together with the corresponding frequencies of occurrences. When applying each function, the user has to input the number of times (rolls, flips) to toss the dice. Needless to say, the more the tosses, the more the frequencies approximate the actual probabilities. Moreover, the package provides functions to generate non-transitive sets of dice (like Efron's) and to check whether a given set of dice is non-transitive with given probability.

Maintained by Gennaro Tedesco:. Last updated 8 years ago.

33.5 match 2.85 score 14 scripts

glsnow

TeachingDemos:Demonstrations for Teaching and Learning

Demonstration functions that can be used in a classroom to demonstrate statistical concepts, or on your own to better understand the concepts or the programming.

Maintained by Greg Snow. Last updated 1 years ago.

12.1 match 7.18 score 760 scripts 13 dependents

ncss-tech

aqp:Algorithms for Quantitative Pedology

The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks <doi:10.1016/j.cageo.2012.10.020>. These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb <https://casoilresource.lawr.ucdavis.edu/soilweb-apps>. Components of the AQP project (aqp, soilDB, sharpshootR, soilReports packages) serve an important role in routine data analysis within the USDA-NRCS Soil Science Division. The AQP suite of R packages offer a convenient platform for bridging the gap between pedometric theory and practice.

Maintained by Dylan Beaudette. Last updated 28 days ago.

digital-soil-mapping ncss-tech nrcs pedology pedometrics soil soil-survey usda

4.6 match 55 stars 11.77 score 1.2k scripts 2 dependents

eagerai

fastai:Interface to 'fastai'

The 'fastai' <https://docs.fast.ai/index.html> library simplifies training fast and accurate neural networks using modern best practices. It is based on research in to deep learning best practices undertaken at 'fast.ai', including 'out of the box' support for vision, text, tabular, audio, time series, and collaborative filtering models.

Maintained by Turgut Abdullayev. Last updated 11 months ago.

audio collaborative-filtering darknet darknet-image-classification fastai medical object-detection tabular text vision

5.6 match 118 stars 9.40 score 76 scripts

eonurk

cinaRgenesets:Ready-to-Use Curated Gene Sets for 'cinaR'

Immune related gene sets provided along with the 'cinaR' package.

Maintained by Onur Karakaslar. Last updated 4 years ago.

dice enrichment enrichment-analysis gene-sets genesets pbmc wikipathways

15.5 match 3 stars 3.35 score 15 scripts

igraph

igraph:Network Analysis and Visualization

Routines for simple graphs and network analysis. It can handle large graphs very well and provides functions for generating random and regular graphs, graph visualization, centrality methods and much more.

Maintained by Kirill Müller. Last updated 2 days ago.

complex-networks graph-algorithms graph-theory mathematics network-analysis network-graph fortran libxml2 glpk openblas cpp

2.3 match 581 stars 21.10 score 31k scripts 1.9k dependents

tidymodels

corrr:Correlations in R

A tool for exploring correlations. It makes it possible to easily perform routine tasks when exploring correlation matrices such as ignoring the diagonal, focusing on the correlations of certain variables against others, or rearranging and visualizing the matrix in terms of the strength of the correlations.

Maintained by Max Kuhn. Last updated 1 years ago.

3.3 match 593 stars 13.82 score 2.9k scripts 7 dependents

hneth

ds4psy:Data Science for Psychologists

All datasets and functions required for the examples and exercises of the book "Data Science for Psychologists" (by Hansjoerg Neth, Konstanz University, 2023), freely available at <https://bookdown.org/hneth/ds4psy/>. The book and course introduce principles and methods of data science to students of psychology and other biological or social sciences. The 'ds4psy' package primarily provides datasets, but also functions for data generation and manipulation (e.g., of text and time data) and graphics that are used in the book and its exercises. All functions included in 'ds4psy' are designed to be explicit and instructive, rather than efficient or elegant.

Maintained by Hansjoerg Neth. Last updated 1 months ago.

data-literacy data-science education exploratory-data-analysis psychology social-sciences visualisation

6.7 match 22 stars 6.79 score 70 scripts

cran

vcd:Visualizing Categorical Data

Visualization techniques, data sets, summary and inference procedures aimed particularly at categorical data. Special emphasis is given to highly extensible grid graphics. The package was package was originally inspired by the book "Visualizing Categorical Data" by Michael Friendly and is now the main support package for a new book, "Discrete Data Analysis with R" by Michael Friendly and David Meyer (2015).

Maintained by David Meyer. Last updated 6 months ago.

4.0 match 5 stars 10.57 score 3.1k scripts 86 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-generation wakefield

5.1 match 256 stars 7.13 score 209 scripts

modesto-escobar

netCoin:Interactive Analytic Networks

Create interactive analytic networks. It joins the data analysis power of R to obtain coincidences, co-occurrences and correlations, and the visualization libraries of 'JavaScript' in one package.

Maintained by Modesto Escobar. Last updated 16 days ago.

4.9 match 11 stars 7.22 score 47 scripts

smartinsightsfromdata

rpivotTable:Build Powerful Pivot Tables and Dynamically Slice & Dice your Data

Build powerful pivot tables (aka Pivot Grid, Pivot Chart, Cross-Tab) and dynamically slice & dice / drag 'n' drop your data. 'rpivotTable' is a wrapper of 'pivottable', a powerful open-source Pivot Table library implemented in 'JavaScript' by Nicolas Kruchten. Aligned to 'pivottable' v2.19.0.

Maintained by Enzo Martoglio. Last updated 7 years ago.

3.3 match 288 stars 10.51 score 337 scripts 6 dependents

muschellij2

neurobase:'Neuroconductor' Base Package with Helper Functions for 'nifti' Objects

Base package for 'Neuroconductor', which includes many helper functions that interact with objects of class 'nifti', implemented by package 'oro.nifti', for reading/writing and also other manipulation functions.

Maintained by John Muschelli. Last updated 1 months ago.

4.0 match 5 stars 8.49 score 486 scripts 7 dependents

bioc

BioCor:Functional similarities

Calculates functional similarities based on the pathways described on KEGG and REACTOME or in gene sets. These similarities can be calculated for pathways or gene sets, genes, or clusters and combined with other similarities. They can be used to improve networks, gene selection, testing relationships...

Maintained by Lluís Revilla Sancho. Last updated 5 months ago.

statisticalmethod clustering geneexpression network pathways networkenrichment systemsbiology bioconductor-packages bioinformatics functional-similarity gene gene-sets pathway-analysis similarity similarity-measurement

5.0 match 14 stars 6.59 score

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.

3.5 match 7 stars 9.11 score 1.3k scripts 6 dependents

bioc

SMAD:Statistical Modelling of AP-MS Data (SMAD)

Assigning probability scores to protein interactions captured in affinity purification mass spectrometry (AP-MS) expriments to infer protein-protein interactions. The output would facilitate non-specific background removal as contaminants are commonly found in AP-MS data.

Maintained by Qingzhou Zhang. Last updated 5 months ago.

massspectrometry proteomics software cpp

6.6 match 4.60 score 3 scripts

bernd-mueller

epos:Epilepsy Ontologies' Similarities

Analysis and visualization of similarities between epilepsy ontologies based on text mining results by comparing ranked lists of co-occurring drug terms in the BioASQ corpus. The ranked result lists of neurological drug terms co-occurring with terms from the epilepsy ontologies EpSO, ESSO, EPILONT, EPISEM and FENICS undergo further analysis. The source data to create the ranked lists of drug names is produced using the text mining workflows described in Mueller, Bernd and Hagelstein, Alexandra (2016) <doi:10.4126/FRL01-006408558>, Mueller, Bernd et al. (2017) <doi:10.1007/978-3-319-58694-6_22>, Mueller, Bernd and Rebholz-Schuhmann, Dietrich (2020) <doi:10.1007/978-3-030-43887-6_52>, and Mueller, Bernd et al. (2022) <doi:10.1186/s13326-021-00258-w>.

Maintained by Bernd Mueller. Last updated 1 years ago.

6.9 match 4.03 score 53 scripts

rich-iannone

DiagrammeR:Graph/Network Visualization

Build graph/network structures using functions for stepwise addition and deletion of nodes and edges. Work with data available in tables for bulk addition of nodes, edges, and associated metadata. Use graph selections and traversals to apply changes to specific nodes or edges. A wide selection of graph algorithms allow for the analysis of graphs. Visualize the graphs and take advantage of any aesthetic properties assigned to nodes and edges.

Maintained by Richard Iannone. Last updated 2 months ago.

graph graph-functions network-graph property-graph visualization

1.8 match 1.7k stars 15.18 score 3.8k scripts 87 dependents

mlampros

textTinyR:Text Processing for Small or Big Data Files

It offers functions for splitting, parsing, tokenizing and creating a vocabulary for big text data files. Moreover, it includes functions for building a document-term matrix and extracting information from those (term-associations, most frequent terms). It also embodies functions for calculating token statistics (collocations, look-up tables, string dissimilarities) and functions to work with sparse matrices. Lastly, it includes functions for Word Vector Representations (i.e. 'GloVe', 'fasttext') and incorporates functions for the calculation of (pairwise) text document dissimilarities. The source code is based on 'C++11' and exported in R through the 'Rcpp', 'RcppArmadillo' and 'BH' packages.

Maintained by Lampros Mouselimis. Last updated 1 years ago.

bh boost cpp11 processing rcpp rcpparmadillo text openblas cpp openmp

3.5 match 38 stars 7.64 score 244 scripts 1 dependents

alinetalhouk

diceR:Diverse Cluster Ensemble in R

Performs cluster analysis using an ensemble clustering framework, Chiu & Talhouk (2018) <doi:10.1186/s12859-017-1996-y>. Results from a diverse set of algorithms are pooled together using methods such as majority voting, K-Modes, LinkCluE, and CSPA. There are options to compare cluster assignments across algorithms using internal and external indices, visualizations such as heatmaps, and significance testing for the existence of clusters.

Maintained by Derek Chiu. Last updated 1 months ago.

cpp

3.3 match 37 stars 8.13 score 60 scripts 3 dependents

myeomans

DICEM:Directness and Intensity of Conflict Expression

A Natural Language Processing Model trained to detect directness and intensity during conflict. See <https://www.mikeyeomans.info>.

Maintained by Michael Yeomans. Last updated 7 months ago.

7.6 match 3.30 score

bioc

xCell2:A Tool for Generic Cell Type Enrichment Analysis

xCell2 provides methods for cell type enrichment analysis using cell type signatures. It includes three main functions - 1. xCell2Train for training custom references objects from bulk or single-cell RNA-seq datasets. 2. xCell2Analysis for conducting the cell type enrichment analysis using the custom reference. 3. xCell2GetLineage for identifying dependencies between different cell types using ontology.

Maintained by Almog Angel. Last updated 2 months ago.

geneexpression transcriptomics microarray rnaseq singlecell differentialexpression immunooncology genesetenrichment

4.0 match 6 stars 6.17 score 15 scripts

stibu81

ibawds:Functions and Datasets for the Data Science Course at IBAW

A collection of useful functions and datasets for the Data Science Course at IBAW.

Maintained by Stefan Lanz. Last updated 9 days ago.

data-science-learning educational-resources

5.8 match 2 stars 4.26 score 8 scripts

rstudio

keras3:R Interface to 'Keras'

Interface to 'Keras' <https://keras.io>, a high-level neural networks API. 'Keras' was developed with a focus on enabling fast experimentation, supports both convolution based networks and recurrent networks (as well as combinations of the two), and runs seamlessly on both CPU and GPU devices.

Maintained by Tomasz Kalinowski. Last updated 4 days ago.

1.8 match 845 stars 13.57 score 264 scripts 2 dependents

yesimiao

clttools:Central Limit Theorem Experiments (Theoretical and Simulation)

Central limit theorem experiments presented by data frames or plots. Functions include generating theoretical sample space, corresponding probability, and simulated results as well.

Maintained by Simiao Ye. Last updated 9 years ago.

16.9 match 1.40 score 25 scripts

drostlab

philentropy:Similarity and Distance Quantification Between Probability Functions

Computes 46 optimized distance and similarity measures for comparing probability functions (Drost (2018) <doi:10.21105/joss.00765>). These comparisons between probability functions have their foundations in a broad range of scientific disciplines from mathematics to ecology. The aim of this package is to provide a core framework for clustering, classification, statistical inference, goodness-of-fit, non-parametric statistics, information theory, and machine learning tasks that are based on comparing univariate or multivariate probability functions.

Maintained by Hajk-Georg Drost. Last updated 3 months ago.

distance-measures distance-quantification information-theory jensen-shannon-divergence parametric-distributions similarity-measures statistics cpp

1.9 match 137 stars 12.44 score 484 scripts 24 dependents

bioc

GeDi:Defining and visualizing the distances between different genesets

The package provides different distances measurements to calculate the difference between genesets. Based on these scores the genesets are clustered and visualized as graph. This is all presented in an interactive Shiny application for easy usage.

Maintained by Annekathrin Nedwed. Last updated 5 months ago.

gui genesetenrichment software transcription rnaseq visualization clustering pathways reportwriting go kegg reactome shinyapps

3.7 match 1 stars 5.52 score 22 scripts

koheiw

proxyC:Computes Proximity in Large Sparse Matrices

Computes proximity between rows or columns of large matrices efficiently in C++. Functions are optimised for large sparse matrices using the Armadillo and Intel TBB libraries. Among various built-in similarity/distance measures, computation of correlation, cosine similarity and Euclidean distance is particularly fast.

Maintained by Kohei Watanabe. Last updated 5 months ago.

data-science distance-measures similarity-measures openblas onetbb cpp

2.3 match 29 stars 8.88 score 23 scripts 32 dependents

cran

matRiks:Generates Raven-Like Matrices According to Rules

Generates Raven like matrices according to different rules and the response list associated to the matrix. The package can generate matrices composed of 4 or 9 cells, along with a response list of 11 elements (the correct response + 10 incorrect responses). The matrices can be generated according to both logical rules (i.e., the relationships between the elements in the matrix are manipulated to create the matrix) and visual-spatial rules (i.e., the visual or spatial characteristics of the elements are manipulated to generate the matrix). The graphical elements of this package are based on the 'DescTools' package. This package has been developed within the PRIN2020 Project (Prot. 20209WKCLL) titled "Computerized, Adaptive and Personalized Assessment of Executive Functions and Fluid Intelligence" and founded by the Italian Ministry of Education and Research.

Maintained by Andrea Brancaccio. Last updated 1 years ago.

5.2 match 3.60 score

kapelner

ICEbox:Individual Conditional Expectation Plot Toolbox

Implements Individual Conditional Expectation (ICE) plots, a tool for visualizing the model estimated by any supervised learning algorithm. ICE plots refine Friedman's partial dependence plot by graphing the functional relationship between the predicted response and a covariate of interest for individual observations. Specifically, ICE plots highlight the variation in the fitted values across the range of a covariate of interest, suggesting where and to what extent they may exist.

Maintained by Adam Kapelner. Last updated 3 years ago.

10.8 match 1.72 score 52 scripts

boxuancui

DataExplorer:Automate Data Exploration and Treatment

Automated data exploration process for analytic tasks and predictive modeling, so that users could focus on understanding data and extracting insights. The package scans and analyzes each variable, and visualizes them with typical graphical techniques. Common data processing methods are also available to treat and format data.

Maintained by Boxuan Cui. Last updated 1 years ago.

data-analysis data-exploration data-science eda visualization

1.5 match 519 stars 11.16 score 2.2k scripts

helixcn

spaa:SPecies Association Analysis

Miscellaneous functions for analysing species association and niche overlap.

Maintained by Jinlong Zhang. Last updated 4 years ago.

2.0 match 12 stars 7.40 score 155 scripts 1 dependents

muschellij2

fslr:Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')

Wrapper functions that interface with 'FSL' <http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/>, a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired.

Maintained by John Muschelli. Last updated 1 months ago.

fsl fslr neuroimaging neuroimaging-analysis neuroimaging-data-science

1.8 match 41 stars 8.01 score 420 scripts

bommert

stabm:Stability Measures for Feature Selection

An implementation of many measures for the assessment of the stability of feature selection. Both simple measures and measures which take into account the similarities between features are available, see Bommert (2020) <doi:10.17877/DE290R-21906>.

Maintained by Andrea Bommert. Last updated 2 years ago.

2.0 match 6 stars 6.25 score 33 scripts 3 dependents

trevorld

affiner:A Finer Way to Render 3D Illustrated Objects in 'grid' Using Affine Transformations

Dilate, permute, project, reflect, rotate, shear, and translate 2D and 3D points. Supports parallel projections including oblique projections such as the cabinet projection as well as axonometric projections such as the isometric projection. Use 'grid's "affine transformation" feature to render illustrated flat surfaces.

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

1.8 match 9 stars 6.91 score 1 scripts 5 dependents

chrhennig

prabclus:Functions for Clustering and Testing of Presence-Absence, Abundance and Multilocus Genetic Data

Distance-based parametric bootstrap tests for clustering with spatial neighborhood information. Some distance measures, Clustering of presence-absence, abundance and multilocus genetic data for species delimitation, nearest neighbor based noise detection. Genetic distances between communities. Tests whether various distance-based regressions are equal. Try package?prabclus for on overview.

Maintained by Christian Hennig. Last updated 6 months ago.

2.0 match 1 stars 5.99 score 90 scripts 71 dependents

blawson-bates

simEd:Simulation Education

Contains various functions to be used for simulation education, including simple Monte Carlo simulation functions, queueing simulation functions, variate generation functions capable of producing independent streams and antithetic variates, functions for illustrating random variate generation for various discrete and continuous distributions, and functions to compute time-persistent statistics. Also contains functions for visualizing: event-driven details of a single-server queue model; a Lehmer random number generator; variate generation via acceptance-rejection; and of generating a non-homogeneous Poisson process via thinning. Also contains two queueing data sets (one fabricated, one real-world) to facilitate input modeling. More details on the use of these functions can be found in Lawson and Leemis (2015) <doi:10.1109/WSC.2017.8248124>, in Kudlay, Lawson, and Leemis (2020) <doi:10.1109/WSC48552.2020.9384010>, and in Lawson and Leemis (2021) <doi:10.1109/WSC52266.2021.9715299>.

Maintained by Barry Lawson. Last updated 1 years ago.

3.5 match 3.35 score 45 scripts

pdwaggoner

mlbstats:Major League Baseball Player Statistics Calculator

Computational functions for player metrics in major league baseball including batting, pitching, fielding, base-running, and overall player statistics. This package is actively maintained with new metrics being added as they are developed.

Maintained by Philip D. Waggoner. Last updated 6 months ago.

mlb player-level-metrics sabermetrics statistics

3.3 match 3.36 score 46 scripts

maflot

diceplot:High Dimensional Categorical Data Visualization

Easy visualization for datasets with more than two categorical variables and additional continuous variables. 'diceplot' is particularly useful for exploring complex categorical data in the context of pathway analysis across multiple conditions. For a detailed documentation please visit <https://dice-and-domino-plot.readthedocs.io/en/latest/>.

Maintained by Matthias Flotho. Last updated 3 days ago.

data-visualization

2.5 match 4 stars 4.15 score 5 scripts

tesselle

tabula:Analysis and Visualization of Archaeological Count Data

An easy way to examine archaeological count data. This package provides several tests and measures of diversity: heterogeneity and evenness (Brillouin, Shannon, Simpson, etc.), richness and rarefaction (Chao1, Chao2, ACE, ICE, etc.), turnover and similarity (Brainerd-Robinson, etc.). It allows to easily visualize count data and statistical thresholds: rank vs abundance plots, heatmaps, Ford (1962) and Bertin (1977) diagrams, etc.

Maintained by Nicolas Frerebeau. Last updated 12 days ago.

data-visualization archaeology archaeological-science

2.0 match 5.10 score 38 scripts 1 dependents

hflavio12

cmahalanobis:Calculate Distance Measures for a Given List of Data Frames with Factors

It provides functions that calculate Mahalanobis distance, Euclidean distance, Manhattan distance, Chebyshev distance, Hamming distance, Canberra distance, Minkowski distance, Cosine distance, Bhattacharyya distance, Jaccard distance, Hellinger distance, Bray-Curtis distance, Sorensen-Dice distance between each pair of species in a list of data frames. These metrics are fundamental in various fields, such as cluster analysis, classification, and other applications of machine learning and data mining, where assessing similarity or dissimilarity between data is crucial. The package is designed to be flexible and easily integrated into data analysis workflows, providing reliable tools for evaluating distances in multidimensional contexts.

Maintained by Flavio Gioia. Last updated 2 months ago.

5.6 match 1.70 score

bioc

magrene:Motif Analysis In Gene Regulatory Networks

magrene allows the identification and analysis of graph motifs in (duplicated) gene regulatory networks (GRNs), including lambda, V, PPI V, delta, and bifan motifs. GRNs can be tested for motif enrichment by comparing motif frequencies to a null distribution generated from degree-preserving simulated GRNs. Motif frequencies can be analyzed in the context of gene duplications to explore the impact of small-scale and whole-genome duplications on gene regulatory networks. Finally, users can calculate interaction similarity for gene pairs based on the Sorensen-Dice similarity index.

Maintained by Fabrício Almeida-Silva. Last updated 5 months ago.

software motifdiscovery networkenrichment systemsbiology graphandnetwork gene-regulatory-network motif-analysis network-motifs network-science

2.2 match 1 stars 4.00 score 2 scripts

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.

1.3 match 12 stars 6.98 score 20 scripts

earowang

tsibbletalk:Interactive Graphics for Tsibble Objects

A shared tsibble data easily communicates between htmlwidgets on both client and server sides, powered by 'crosstalk'. A shiny module is provided to visually explore periodic/aperiodic temporal patterns.

Maintained by Earo Wang. Last updated 1 years ago.

1.7 match 28 stars 4.89 score 28 scripts

c0webster

fedmatch:Fast, Flexible, and User-Friendly Record Linkage Methods

Provides a flexible set of tools for matching two un-linked data sets. 'fedmatch' allows for three ways to match data: exact matches, fuzzy matches, and multi-variable matches. It also allows an easy combination of these three matches via the tier matching function.

Maintained by Chris Webster. Last updated 1 months ago.

cpp openmp

1.6 match 1 stars 4.62 score 80 scripts

cran

evilDice:Test Dice Sets for Intransitive Properties

Checks to see whether a supplied set of dice (their face values) are transitive, returning pair-win and group-roll win probabilities. Expected returns (mean magnitude of win/loss) are presented as well.

Maintained by Carl Witthoft. Last updated 2 years ago.

7.1 match 1.00 score

cran

droll:Analyze Roll Distributions

A toolkit for parsing dice notation, analyzing rolls, calculating success probabilities, and plotting outcome distributions.

Maintained by C. Lente. Last updated 4 years ago.

2.4 match 1.70 score 9 scripts

biogen-inc

IDEAFilter:Agnostic, Idiomatic Data Filter Module for Shiny

When added to an existing shiny app, users may subset any developer-chosen R data.frame on the fly. That is, users are empowered to slice & dice data by applying multiple (order specific) filters using the AND (&) operator between each, and getting real-time updates on the number of rows effected/available along the way. Thus, any downstream processes that leverage this data source (like tables, plots, or statistical procedures) will re-render after new filters are applied. The shiny module’s user interface has a 'minimalist' aesthetic so that the focus can be on the data & other visuals. In addition to returning a reactive (filtered) data.frame, 'IDEAFilter' as also returns 'dplyr' filter statements used to actually slice the data.

Maintained by Aaron Clark. Last updated 11 months ago.

shiny

0.5 match 15 stars 6.74 score 35 scripts 1 dependents

danheck

RRreg:Correlation and Regression Analyses for Randomized Response Data

Univariate and multivariate methods to analyze randomized response (RR) survey designs (e.g., Warner, S. L. (1965). Randomized response: A survey technique for eliminating evasive answer bias. Journal of the American Statistical Association, 60, 63–69, <doi:10.2307/2283137>). Besides univariate estimates of true proportions, RR variables can be used for correlations, as dependent variable in a logistic regression (with or without random effects), or as predictors in a linear regression (Heck, D. W., & Moshagen, M. (2018). RRreg: An R package for correlation and regression analyses of randomized response data. Journal of Statistical Software, 85(2), 1–29, <doi:10.18637/jss.v085.i02>). For simulations and the estimation of statistical power, RR data can be generated according to several models. The implemented methods also allow to test the link between continuous covariates and dishonesty in cheating paradigms such as the coin-toss or dice-roll task (Moshagen, M., & Hilbig, B. E. (2017). The statistical analysis of cheating paradigms. Behavior Research Methods, 49, 724–732, <doi:10.3758/s13428-016-0729-x>).

Maintained by Daniel W. Heck. Last updated 2 years ago.

0.5 match 3 stars 5.46 score 48 scripts

gzt

catsim:Binary and Categorical Image Similarity Index

Computes a structural similarity metric (after the style of MS-SSIM for images) for binary and categorical 2D and 3D images. Can be based on accuracy (simple matching), Cohen's kappa, Rand index, adjusted Rand index, Jaccard index, Dice index, normalized mutual information, or adjusted mutual information. In addition, has fast computation of Cohen's kappa, the Rand indices, and the two mutual informations. Implements the methods of Thompson and Maitra (2020) <doi:10.48550/arXiv.2004.09073>.

Maintained by Geoffrey Thompson. Last updated 6 months ago.

binary-data binary-image-classification binary-image-processing categorical-data categorical-images classification image-processing cpp

0.5 match 5 stars 4.40 score 5 scripts

fmichonneau

riceware:A Diceware Passphrase Implementation

The Diceware method can be used to generate strong passphrases. In short, you roll a 6-faced dice 5 times in a row, the number obtained is matched against a dictionary of easily remembered words. By combining together 7 words thus generated, you obtain a password that is relatively easy to remember, but would take several millions years (on average) for a powerful computer to guess.

Maintained by Francois Michonneau. Last updated 4 years ago.

0.5 match 4 stars 3.30 score 5 scripts

michael-scholz-dev

hypercube:Organizing Data in Hypercubes

Provides functions and methods for organizing data in hypercubes (i.e., a multi-dimensional cube). Cubes are generated from molten data frames. Each cube can be manipulated with five operations: rotation (change.dimensionOrder()), dicing and slicing (add.selection(), remove.selection()), drilling down (add.aggregation()), and rolling up (remove.aggregation()).

Maintained by Michael Scholz. Last updated 5 years ago.

0.5 match 1.15 score 14 scripts

snapchaturvedi

prithulib:Perform Random Experiments

Enables user to perform the following: 1. Roll 'n' number of die/dice (roll()). 2. Toss 'n' number of coin(s) (toss()). 3. Play the game of Rock, Paper, Scissors. 4. Choose 'n' number of card(s) from a pack of 52 playing cards (Joker optional).

Maintained by Prithul Chaturvedi. Last updated 6 years ago.

0.5 match 1.00 score 4 scripts