A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models

MorphoTools2 R package

A Python package using Gromov-Wasserstein distance to compare cell shapes

Pipeline to process sequencing reads from a ChIP-DIP experiment

eNRSA is an enhanced version of NRSA for analyzing nascent transcription profiles generated by PRO-seq, GRO-seq, (m)NET-seq, and Butt-seq data.

Identify conserved positions in amino acid multiple sequence alignments in R

Tidy Plots for Scientific Papers

ggplot extension: options for tailored facets, multiple colourscales and miscellaneous

Initialization is critical for preserving global data structure in both t-SNE and UMAP

Biogeographic regionalization and spatial conservation

Draw heatmap simply using a tidy data frame

High precision, marker-based, hierarchical cell-type annotation tool for single-cell RNA-seq data

R package for detecting doublets in single-cell RNA sequencing data

Discovery of biological sequence motifs in R

Computations and statistics on manifolds with geometric structures.

書籍『深層ニューラルネットワークの高速化』のサポートサイトです。

A set of scripts to analyze CAGE datasets.

ReapTEC pipeline to simultaneously profile gene expression and enhancer activity in 5' scRNA-seq datasets

Code for ColabDock paper

Geometry library for topological robustness

Repository to store code used for the analyses presented in "Defining the Regulatory Logic of Breast Cancer Using Single-Cell Epigenetic And Transcriptome Profiling"

Bioinformatics pipeline for single-cell 3' UTR isoform quantification