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52 search results found

Shinyjqui ⭐ 267

jQuery UI Interactions and Effects for Shiny

Interactions ⭐ 125

A comprehensive, user-friendly toolkit for visualizing and analyzing statistical interactions. A spinoff from the `jtools` package.

Dorothea ⭐ 105

R package to access DoRothEA's regulons

Rastervis ⭐ 83

The raster package defines classes and methods for spatial raster data access and manipulation. The rasterVis package complements raster providing a set of methods for enhanced visualization and interaction.

Omnipathr ⭐ 80

R client for the OmniPath web service

Ibreakdown ⭐ 79

Break Down with interactions for local explanations (SHAP, BreakDown, iBreakDown)

Treeshap ⭐ 72

Compute SHAP values for your tree-based models using the TreeSHAP algorithm

Graphtweets ⭐ 41

📣 Visualise networks of Twitter interactions

R4couchdb ⭐ 33

Collection of functions 4 R and CouchDB interaction

Reinforcelearn ⭐ 32

R Package for Reinforcement Learning

Sctensor ⭐ 28

R package for detection of cell-cell interaction using Non-negative Tensor Decomposition

iterative Random Forests (iRF): iteratively grows weighted random forests, finds interaction among features

R Package - Interaction with Oxcal

Markov random fields with covariates

Interflex ⭐ 20

Multiplicative Interaction Models Diagnostics and Visualization, Producing Flexible Marginal Effect Estimates

Friedman's H-statistics

Netsmooth ⭐ 18

netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation

This package is for visualising variable importance and variable interaction.

Wildlifedi ⭐ 14

R package for analysing interactions in wildlife telemetry data.

R library to access species interaction data of http://globalbioticinteractions.org

GEMINI: A variational Bayesian approach to identify genetic interactions from combinatorial CRISPR screens

An R package for detecting Gene-by-Environment (GxE) interaction effects on the transcriptome using Allele Specific Expression quantified from RNA-seq

Ecocopula ⭐ 12

R package to find species interactions from co-occurrence data

Tools for estimating interactions

Hiccompare ⭐ 11

Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the analysis of multiple Hi-C matrices

Agingmousebrainccinx ⭐ 11

Predicted cell-cell interactions of the aging mouse brain

A Visualized Shiny App to Evaluate Drug-Drug Interaction

Paxtoolsr ⭐ 9

The package provides a set of R functions for interacting with BioPAX OWL files using Paxtools and the querying Pathway Commons (PC) molecular interaction database

An R package for the Latent Environmental & Genetic InTeraction (LEGIT) model

Sparse Partial correlation ON Gene Expression - an R package for fast and robust ceRNA network inference

jamovi Advanced Mediation Models

Miscellaneous R functions for Presenting and Interpreting Regression Models

Virtualnicher ⭐ 8

virtualNicheR: creating virtual fundamental and realised niches

Spagefinder ⭐ 7

Computational approach to identify Survival associated Pairwise Gene Expression states.

TADpole is a computational tool designed to identify and analyze the entire hierarchy of topologically associated domains (TADs) in intra-chromosomal interaction matrices. This is the development version of TADpole. You can find the stable version at

Explicit Interaction Community Models

Dynamic Stability ⭐ 6

Source scripts for Ushio et al. "Fluctuating interaction network and time-varying stability of a natural fish community"

Econullnetr ⭐ 6

An R package for analysis of Markov Random Fields on 2-dimensional lattices.

Beem Static ⭐ 6

📦BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra models

An R package to plot marginal effects for interactions estimated from linear models

Detection of ligand-protein interactions from thermal proteome profiles (DLPTP) by FDR-controlled analysis of 2D-TPP experiments

The rGriffin package is an R connector to Griffin. Gene Regulatory Interaction Formulator For Inquiring Networks (griffin) is a java library for inference and analysis of Boolean Network models. Griffin takes as inputs biologically meaningful constraints and turns them into a symbolic representation. Using a SAT engine, griffin explores the Boolean Network search space, finding all satisfying assignments that are compatible with the specified constraints. The rgriffin package includes a numb

R Codes for Drug-Target Interaction Prediction

Traitmatch ⭐ 5

Package to predict trait matching from species interactions.

Celltalkdb ⭐ 5

A manually curated database of literature-supported ligand-receptor interactions in human and mouse

TADpole is a computational tool designed to identify and analyze the entire hierarchy of topologically associated domains (TADs) in intra-chromosomal interaction matrices. This is the stable version of TADpole. You can find the development version at

Interactive ⭐ 5

interActive Application Source Code

Supernova ⭐ 5

💫 🎯 Automatic identification of variable and interaction importance using basis functions and non-parametric estimation of interactions/effect modification using joint stochastic interventions.

Schmidt_et_al_2016_community_similarity ⭐ 5

Analysis code for a manuscript on community similarity computation

Infers species direct association networks

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