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Road2R

A curated list of amazingly awesome R libraries, resources and package collection.
https://github.com/Ronlee12355/Road2R

Last synced: 2 days ago
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  • Table of Contents

    • Data manipulation

      • tibble - efficient display structure for tabular data.
      • dbplyr - A 'dplyr' Back End for Databases.
      • plyr - the split-apply-combine paradigm for R.
      • tidyr - Easily Tidy Data with 'spread()' and 'gather()' Functions.
      • stringr - Simple, Consistent Wrappers for Common String Operations.
      • jsonlite - A Robust, High Performance JSON Parser and Generator for R.
      • Matrix - Sparse and Dense Matrix Classes and Methods.
      • xts - tools for time series based data.
      • rlist - A Toolbox for Non-Tabular Data Manipulation.
      • lobstr - lobstr provides tools in the same vein as str(), which allow you to dig into the detail of an object.

    • Visualization

      • ggforce - Accelerating 'ggplot2'.
      • ggpubr - ''ggplot2'' Based Publication Ready Plots.
      • gplots - Various R Programming Tools for Plotting Data.
      • rpart.plot - Plot 'rpart' Models: An Enhanced Version of 'plot.rpart'.
      • pROC - Display and Analyze ROC Curves.

    • Import Data

      • DBI - R Database Interface
      • RCurl - General Network (HTTP/FTP/...) Client Interface for R.
      • data.table - Extension of "data.frame".

    • Network graph

      • network3D - D3 JavaScript Network Graphs from R.
      • snow - Simple Network of Workstations.

    • Shiny

    • Interactive Graphics

    • Word cloud

    • Text mining

      • tm - Text Mining Package.
      • NLP - Natural Language Processing Infrastructure.
      • janeaustenr - Jane Austen's Complete Novels.

    • Machine learning

      • glmnet - Lasso and Elastic-Net Regularized Generalized Linear Models.
      • car - Companion to Applied Regression.
      • randomForest - Breiman and Cutler's Random Forests for Classification and Regression.
      • boot - Bootstrap Functions (Originally by Angelo Canty for S).
      • nnet - Feed-Forward Neural Networks and Multinomial Log-Linear Models.

    • Time series

      • zoo - S3 Infrastructure for Regular and Irregular Time Series (Z's Ordered Observations).

    • Markdown

      • rsconnect - Deployment Interface for R Markdown Documents and Shiny Applications.

    • Online blogs

      • RPubs - Easy web publishing from R.

    • Learning materials

    • Cheatsheet

    • Bioinformatics

      • CancerSubtypes - Cancer subtypes identification, validation and visualization based on multiple genomic data sets.
      • consensusOV - Gene expression-based subtype classification for high-grade serous ovarian cancer.
      • ConsensusClusterPlus - ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking.
      • WGCNA - WGCNA: an R package for weighted correlation network analysis.
      • ImmuLncRNA - The R package 'ImmulancRNA' contains 3 method which can caculate the tumor purity, partial correlation coefficient and identify the lncRNA-pathway pairs.
      • randomForestSRC - R-package for random forest analysis of regression, classification, survival and more.
      • superpc - Supervised Principal Components.
      • CoxBoost - Cox models by likelihood based boosting for a single survival endpoint or competing risks.
      • survivalsvm - Survival Support Vector Analysis.
      • GSVA - Gene Set Variation Analysis for microarray and RNA-seq data.
      • isomiRseeker - Detect miRNA isoforms from small RNA-seq data.
      • glmnet - glmnet: Lasso and Elastic-Net Regularized Generalized Linear Models.
      • OmicCircos - an R application and package for generating high-quality circular plots for omics data.
      • RTN - RTN: Reconstruction of Transcriptional regulatory Networks and analysis of regulons.
      • RedeR - Interactive visualization and manipulation of nested networks.
      • NbClust - NbClust: An R Package for Determining the Relevant Number of Clusters in a Data Set.
      • classifyNMIBC - This package implements a Pearson nearest-centroid classifier that assigns class labels to single samples according to the four transcriptomic UROMOL2021 classes of non-muscle-invasive bladder cancer (NMIBC): class 1, class 2a, class 2b and class 3.

  • Contributing Information

Programming Languages
R 6
Categories
Table of Contents 101 Contributing Information 1
Sub Categories
Cheatsheet 35 Bioinformatics 17 Learning materials 12 Data manipulation 10 Machine learning 5 Visualization 5 Import Data 3 Text mining 3 Interactive Graphics 3 Shiny 2 Network graph 2 Time series 1 Markdown 1 Online blogs 1 Word cloud 1
Keywords
r 4 tidy-data 2 strings 1 regular-expression 1 database 1