Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

• UpdatedMay 8, 2023
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Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets

• UpdatedMar 17, 2025
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marker-based purification of cell types from single-cell RNA-seq datasets

• UpdatedFeb 3, 2025
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A machine learning method for the discovery of the minimum marker gene combinations for cell type identification from single-cell RNA sequencing

• UpdatedMar 17, 2025
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Accurate and fast cell marker gene identification with COSG

• UpdatedDec 24, 2022
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Marker gene profile estimation method used in NeuroExpresso manuscript

• UpdatedJul 11, 2019
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Processing NEON soil microbe marker gene sequence data into ASV tables.

• UpdatedApr 9, 2024
• R

A tool for identifying phylogenetic marker genes in Nucleocytoviricota (giant viruses) and generating concatenated alignments.

• UpdatedFeb 17, 2024
• Python

MiCV is a python dash-based web-application that enables researchers to upload raw scRNA-seq data and perform filtering, analysis, and manual annotation.

• UpdatedJan 23, 2023
• CSS

Interactive visualization of marker genes and clustering in Slide-seq and single cell RNAseq data.

• UpdatedMay 11, 2020
• Jupyter Notebook

Compare several feature selection methods in scRNA-seq analysis

• UpdatedFeb 12, 2023
• Python

A library for differential expression and gene set enrichment analysis based on hydra and pydantic.

• UpdatedAug 8, 2024
• Python

• UpdatedMay 30, 2024
• R

The goal of LRcell is to identify specific sub-cell types that drives the changes observed in a bulk RNA-seq differential gene expression experiment. To achieve this, LRcell utilizes sets of cell marker genes acquired from single-cell RNA-sequencing (scRNA-seq) as indicators for various cell types in the tissue of interest. Next, for each cell t…

• UpdatedSep 11, 2022
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Software suite for marker gene identification and cell type integration from single cell RNA-sequencing data

• UpdatedJun 7, 2024
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A hybrid approach to find spatially relevant marker genes in image based spatial transcriptomics data

• UpdatedMar 2, 2025
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scCTS: identifying the cell type-specific marker genes from population-level single-cell RNA-seq

• UpdatedOct 18, 2024
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Permutation testing in single cell analysis

• UpdatedMay 17, 2022
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MICTI- Marker gene Identification for Cell Type Identity

• UpdatedSep 30, 2019
• Jupyter Notebook

neonMicrobe: Processing NEON soil microbe marker gene sequence data into ASV tables, duplicated fromhttps://github.com/claraqin/neonMicrobe

• UpdatedJan 15, 2023
• HTML