scRNA-Explorer pipeline allows users to interrogate in an interactive manner scRNA-sequencing data sets to explore via gene expression correlations possible function(s) of a gene of interest
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Updated
May 20, 2024 - R
scRNA-Explorer pipeline allows users to interrogate in an interactive manner scRNA-sequencing data sets to explore via gene expression correlations possible function(s) of a gene of interest
Multiplexed droplet scRNA-seq Kang et al Nat Biotechnol 2018
A Julia package for single cell and spatial data analysis
Our comprehensive database integrates data from scRNA seq and sc-ATAC seq, identifying cis-regulatory elements (CREs) through comparison with ENCODE, Epimap, GWAS Catalog, and other datasets. By connecting transcription factors (TFs), CREs, and target genes, cEpiReg unveils hidden regulatory links crucial for understanding AD pathogenesis.
Single cell trajectory detection
Manipulate scRNA-seq data with GSASD
Python pipelines for analysis of adipocyte scRNA-seq data
scGNN (single cell graph neural networks) for single cell clustering and imputation using graph neural networks
Tools, wrappers, utilities, and resources for handling single-cell and spatial transcriptomics data
A package that performs cell type annotations on single cell resolution of spatial transcriptomics data, find the niche interactions and covariation patterns between interacted cell types.
A package for reference mapping and nice visualization
Repository for workshop study projects in Bioinformatics Institute 2023-2024
PHet: Heterogeneity-Preserving Discriminative Feature Selection for Subtype Discovery
An effective tool for single-cell RNA sequencing.
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.
Clustering scRNAseq by genotypes
Data-driven Network-based Bayesian Inference of Drivers
Exercises for scRNA-seq Workshop TREX x BioHPC 2024.
Coarse-graining of large single-cell RNA-seq data into metacells
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