Large-scale Benchmarking of Single-cell Differential Expression Analysis Methods
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Updated
Nov 11, 2021 - R
Large-scale Benchmarking of Single-cell Differential Expression Analysis Methods
Simultaneous analysis of genes and transposable elements (TEs) from 10X scRNAseq datasets derived from CD and NIBD samples using Alevin.
Repository to store and share all related code for the Uterine macrophages and NK cells Project from the Scott Gordon Laboratory at the Children's Hospital of Philadelphia
scRNA cluster via Seurat package
R package to assign an initial bone-related cell type
The R script and relative data set for Integrated single-cell transcriptomics and proteomics reveal cellular-specific response and microenvironment remodeling in aristolochic acid nephropathy
Gene set enrichment analysis from scRNA seq data : in search of the original tissue
Hierarchical and high-resolution cell-type identification for single-cell RNA-seq data based on ScType.
scRNA-seq datasets to support Jung et al, Sci Adv, 7(6): eabe5735, 2021. DOI: 10.1126/sciadv.abe5735
I've written a few functions that help me look through scRNA-seq data while working with Seurat.
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
Objectives are to: Optimise the scRNA-seq data approach using Seurat by investigating the effects of QC and background correction for healthy and a diabetic dataset of the mouse retina. Perform differential gene expression. Perform clustering of the different retinal cell types from the scRNA-Seq data by assessing a range of publicly avail…
Multi Resolution Cluster Optimization
Create violin plots of gene expression for multiple genes
CilioGenics is an integrated method for predicting the ciliary genes
Hyaluronan Mediated Motility Receptor (Hmmr) overexpression
R package to assign ID to genotypes created by Souporcell
Calculate spatial correlation between two genes of a Seurat-format spatial scRNA-seq data
A package for reference mapping and nice visualization
a comprehensive software package with graphical user interface for single-cell RNA sequencing analysis.
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