marker-genes

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

marker-based purification of cell types from single-cell RNA-seq datasets

Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data

Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets

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

Accurate and fast cell marker gene identification with COSG

Accurate and fast cell marker gene identification with COSG

Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data

PIASO: Precise Integrative Analysis of Single-cell Omics

Marker gene profile estimation method used in NeuroExpresso manuscript

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

Processing NEON soil microbe marker gene sequence data into ASV tables.

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

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

Agent-native, local-first plugin for auditable single-cell annotation with governed evidence, contrastive review, conservative abstention, and human-reviewed draft outputs.

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…

A hybrid approach to find spatially relevant marker genes in image based spatial transcriptomics data

Software suite for marker gene identification and cell type integration from single cell RNA-sequencing data

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