Rtsne: T-Distributed Stochastic Neighbor Embedding using a Barnes-Hut Implementation

Canonical link: https://rscholar.com/pkg/Rtsne

Jesse Krijthe • Laurens van der Maaten • View description and downloads View dependencies GitHub project

2014 Published

0.17 Version

0 Citations

2 Authors

Referenced by ⇅	Year
bcTSNE: Projected t-SNE for Batch Correction (Version 0.11.1)	2020
PALMO: Identify Intra and Inter-Donor Variations in Bulk or Single Cell Longitudinal Dataset (Version 0.1.2)	2022
spathial: Evolutionary Analysis (Version 0.1.2)	2020
MOSS: Multi-Omic Integration via Sparse Singular Value Decomposition (Version 0.2.2)	2021
AutoPipe: Automated Transcriptome Classifier Pipeline: Comprehensive Transcriptome Analysis (Version 0.1.6)	2019
CINNA: Deciphering Central Informative Nodes in Network Analysis (Version 1.2.2)	2017
EmbedSOM: Fast Embedding Guided by Self-Organizing Map (Version 2.1.2)	2019
Evacluster: Evaluation Clustering Methods for Disease Subtypes Diagnosis (Version 0.1.0)	2022
EvoPhylo: Pre- And Postprocessing of Morphological Data from Relaxed Clock Bayesian Phylogenetics (Version 0.3.2)	2022
FateID: Quantification of Fate Bias in Multipotent Progenitors (Version 0.2.2)	2017
HDclust: Clustering High Dimensional Data with Hidden Markov Model on Variable Blocks (Version 1.0.4)	2018
HVT: Constructing Hierarchical Voronoi Tessellations and Overlay Heatmaps for Data Analysis (Version 24.9.1)	2023
KODAMA: Knowledge Discovery by Accuracy Maximization (Version 2.4.1)	2014
MBMethPred: Medulloblastoma Subgroups Prediction (Version 0.1.4.2)	2022
Mercator: Clustering and Visualizing Distance Matrices (Version 1.1.5)	2019
MiscMetabar: Miscellaneous Functions for Metabarcoding Analysis (Version 0.10.1)	2024
NGCHM: Next Generation Clustered Heat Maps (Version 1.0.3)	2024
PAC: Partition-Assisted Clustering and Multiple Alignments of Networks (Version 1.1.4)	2016
Platypus: Single-Cell Immune Repertoire and Gene Expression Analysis (Version 3.6.0)	2021
ProjectionBasedClustering: Projection Based Clustering (Version 1.2.2)	2017
PsychWordVec: Word Embedding Research Framework for Psychological Science (Version 2023.9)	2022
RaceID: Identification of Cell Types, Inference of Lineage Trees, and Prediction of Noise Dynamics from Single-Cell RNA-Seq Data (Version 0.3.8)	2018
SNPfiltR: Interactively Filter SNP Datasets (Version 1.0.1)	2021
Seurat: Tools for Single Cell Genomics (Version 5.1.0)	2017
SuperCell: Simplification of scRNA-Seq Data by Merging Together Similar Cells (Version 1.0.1)	2024
UCSCXenaShiny: Interactive Analysis of UCSC Xena Data (Version 2.1.0)	2019
WormTensor: A Clustering Method for Time-Series Whole-Brain Activity Data of 'C. elegans' (Version 0.1.1)	2022
ZetaSuite: Analyze High-Dimensional High-Throughput Dataset and Quality Control Single-Cell RNA-Seq (Version 1.0.1)	2022
bbknnR: Perform Batch Balanced KNN in R (Version 1.1.1)	2022
coRanking: Co-Ranking Matrix (Version 0.2.5)	2016
conos: Clustering on Network of Samples (Version 1.5.2)	2021
densityClust: Clustering by Fast Search and Find of Density Peaks (Version 0.3.3)	2014
diceR: Diverse Cluster Ensemble in R (Version 2.2.0)	2017
dimRed: A Framework for Dimensionality Reduction (Version 0.2.6)	2017
dyndimred: Dimensionality Reduction Methods in a Common Format (Version 1.0.4)	2019
fastTopics: Fast Algorithms for Fitting Topic Models and Non-Negative Matrix Factorizations to Count Data (Version 0.6-192)	2022
fdm2id: Data Mining and R Programming for Beginners (Version 0.9.9)	2019
ggpca: Publication-Ready PCA, t-SNE, and UMAP Plots (Version 0.1.2)	2024
iCellR: Analyzing High-Throughput Single Cell Sequencing Data (Version 1.6.7)	2019
immunarch: Bioinformatics Analysis of T-Cell and B-Cell Immune Repertoires (Version 0.9.1)	2020
immunaut: Machine Learning Immunogenicity and Vaccine Response Analysis (Version 1.0.1)	2024
inferCSN: Inferring Cell-Specific Gene Regulatory Network (Version 1.0.8)	2023
labdsv: Ordination and Multivariate Analysis for Ecology (Version 2.1-0)	2005
liminal: Multivariate Data Visualization with Tours and Embeddings (Version 0.1.2)	2021
maotai: Tools for Matrix Algebra, Optimization and Inference (Version 0.2.5)	2019
mmb: Arbitrary Dependency Mixed Multivariate Bayesian Models (Version 0.13.3)	2020
pagoda2: Single Cell Analysis and Differential Expression (Version 1.0.12)	2021
pctax: Professional Comprehensive Omics Data Analysis (Version 0.1.1)	2024
randomcoloR: Generate Attractive Random Colors (Version 1.1.0.1)	2016
rliger: Linked Inference of Genomic Experimental Relationships (Version 2.1.0)	2021
scRNAtools: Single Cell RNA Sequencing Data Analysis Tools (Version 1.0)	2018
seriation: Infrastructure for Ordering Objects Using Seriation (Version 1.5.6)	2007
stm: Estimation of the Structural Topic Model (Version 1.3.7)	2014
swaRmverse: Swarm Space Creation (Version 0.1.1)	2024
theftdlc: Analyse and Interpret Time Series Features (Version 0.1.2)	2024
tinyarray: Expression Data Analysis and Visualization (Version 2.4.2)	2021
visvow: Visible Vowels: Visualization of Vowel Variation (Version 1.3.11)	2018

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