A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data
☆32Dec 11, 2025Updated 2 months ago
Alternatives and similar repositories for MATES
Users that are interested in MATES are comparing it to the libraries listed below
Sorting:
- Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq☆21Jan 26, 2026Updated last month
- Single-cell Transposable Element Locus Level Analysis of scRNA Sequencing☆19Oct 28, 2025Updated 4 months ago
- Software for Quantifying Interspersed Repeat Expression☆65Jun 20, 2022Updated 3 years ago
- ☆33Jun 12, 2024Updated last year
- scMalignantFinder is a Python package specially designed for analyzing cancer single-cell RNA-seq datasets to distinguish malignant cells…☆17Feb 20, 2026Updated last week
- Detecting and dissecting anomalous anatomic regions in spatial transcriptomics with STANDS☆11Dec 27, 2024Updated last year
- Tool comparison for detecting differentially expressed individual transposable elements☆11Jan 7, 2022Updated 4 years ago
- UNAGI: deep generative AI for virtual disease and unsuperivsed in-silico perturbations.☆51Feb 18, 2026Updated last week
- ☆115Apr 24, 2024Updated last year
- A developed pipeline for expressed endogenous retrovirus identification.☆16Oct 9, 2024Updated last year
- Code and data sharing of Liu et al. 2023 manuscript☆16Apr 18, 2023Updated 2 years ago
- Allo: a multi-mapped read rescue strategy for gene regulatory analyses☆24Sep 5, 2024Updated last year
- scAB detects multiresolution cell states with clinical significance☆20Nov 14, 2022Updated 3 years ago
- A High Effect Marker Gene Search Tool for Single-cell RNA-seq Analysis☆34Sep 14, 2024Updated last year
- Deconvolution of spatial transcriptomics at single-cell resolution☆20Sep 19, 2024Updated last year
- Seismic R package. Discover cell type-trait associations in minutes for GWAS and single-cell RNA-sequencing data☆27Dec 10, 2025Updated 2 months ago
- Toolbox of the Human Neural Organoid Cell Atlas☆30Updated this week
- Python agent-based model tool for inference, visualization and analysis of cell-cell communication from single-cell data☆35Nov 28, 2025Updated 3 months ago
- Quantification of transposable element expression using RNA-seq☆87Feb 8, 2024Updated 2 years ago
- ☆23Jul 9, 2025Updated 7 months ago
- Estimate locus specific human LINE-1 expression.☆39Jan 19, 2026Updated last month
- ☆11Feb 11, 2021Updated 5 years ago
- Single-cell analytic toolbox that offers modular workflows for multi-level cellular annotation and user-friendly analysis reports☆11May 25, 2023Updated 2 years ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆10May 12, 2025Updated 9 months ago
- simpler single cell RNAseq data Visualization☆10Feb 28, 2025Updated last year
- ☆10Jan 29, 2020Updated 6 years ago
- Estimate the cis-regulatory activity of transposable element (TEs) subfamilies☆10Dec 15, 2023Updated 2 years ago
- ☆10Oct 15, 2025Updated 4 months ago
- ☆12Apr 4, 2023Updated 2 years ago
- a simple R data package for curated cancer pathway-specific gene lists☆13Mar 31, 2020Updated 5 years ago
- ☆11Jul 8, 2024Updated last year
- Hierarchical annotation of immune cells n scRNA-Seq data based on ssGSEA algorithm.☆10May 31, 2024Updated last year
- A package that performs cell type annotations on single cell resolution of spatial transcriptomics data, find the niche interactions and …☆14Dec 5, 2025Updated 2 months ago
- ☆11May 24, 2024Updated last year
- ☆14Sep 24, 2024Updated last year
- HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.☆11Sep 24, 2024Updated last year
- DOLPHIN: Advances Single-cell RNA-seq Analysis Beyond Gene-Level by Integrating Exon-Level Quantification and Junction Reads with Deep Ne…☆14Jul 16, 2025Updated 7 months ago
- ☆12Nov 20, 2023Updated 2 years ago
- CellPolaris☆12Jan 11, 2026Updated last month