A comprehensive tool to infer TF-centred, spatial gene regulatory networks for the spatially resolved transcriptomic data.
☆20Apr 27, 2025Updated 10 months ago
Alternatives and similar repositories for SpaGRN
Users that are interested in SpaGRN are comparing it to the libraries listed below
Sorting:
- Calibrated clustering with artificial variables to avoid over-clustering in single-cell RNA-sequencing☆18Nov 18, 2025Updated 3 months ago
- A tool to use stereo-seq GEM and ssDNA to generate single-cell and 3D spatial resolved transtriptomics data☆13Oct 12, 2023Updated 2 years ago
- An R package to implement Differential Gene Set Enrichment Analysis (DGSEA): A statistical approach to quantify the relative enrichment o…☆14Apr 12, 2023Updated 2 years ago
- Gene orthologs for model organisms in a tidy data format☆14Sep 29, 2022Updated 3 years ago
- ☆36Feb 20, 2026Updated 2 weeks ago
- rnalib: a python-based transcriptomics library☆11Jan 23, 2026Updated last month
- This repository contains all DeepCLIP Python code☆11May 30, 2024Updated last year
- Network Visualization using both GUI and Programming☆29May 27, 2025Updated 9 months ago
- Flexible Integration of single-cell RNA-sequencing data for large-scale Multi-tissue cell atlas datasets☆13Sep 20, 2022Updated 3 years ago
- ☆14Apr 2, 2025Updated 11 months ago
- ☆13Nov 29, 2022Updated 3 years ago
- Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks☆29Aug 16, 2021Updated 4 years ago
- VT3D: a versatile Visualization Toolbox for 3D spatial transcriptomics atlas☆14Nov 6, 2024Updated last year
- mouse_fullStack_annotations☆13Jun 29, 2023Updated 2 years ago
- ExTraMapper is a tool to find Exon and Transcript-level Mappings of a given pair of orthologous genes between two organisms using sequenc…☆11Apr 20, 2022Updated 3 years ago
- Serves a web interface and RESTful API for reference genome assets.☆12Feb 25, 2026Updated last week
- Generate Novel Insights from Gene Correlation Data☆13Jun 27, 2022Updated 3 years ago
- R package for generalized binary covariance decomposition.☆15Jul 13, 2025Updated 7 months ago
- MetaProFi is a bloom filter based tool for storing and querying sequence data for accurate identification of functionally relevant geneti…☆12Apr 14, 2022Updated 3 years ago
- MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences☆15Jan 14, 2022Updated 4 years ago
- ☆17Jul 7, 2025Updated 8 months ago
- Deep learning based prediction of IsoForm FUnctions from Sequences and Expression☆15Jul 28, 2025Updated 7 months ago
- A scaffold assembling pipeline for stLFR reads.☆14Mar 15, 2021Updated 4 years ago
- A fast and programmatic MELODI☆17Apr 16, 2024Updated last year
- Metagenomics Taxonomic Reads Assembly Single-Species☆16May 25, 2023Updated 2 years ago
- Codes used in LISTA project.☆15Apr 17, 2024Updated last year
- SpaceX: Gene Co-expression Network Estimation for Spatial Transcriptomics☆20Apr 5, 2023Updated 2 years ago
- scVI extension for unspliced RNA☆16May 18, 2025Updated 9 months ago
- Learning meaningful representations of genes☆21Jul 7, 2025Updated 8 months ago
- Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments☆19Aug 12, 2025Updated 6 months ago
- This is an updated mirror of the original PacBio Read Simulator☆39Mar 30, 2018Updated 7 years ago
- This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.☆21Oct 19, 2022Updated 3 years ago
- SRY: an effective method for sorting long-read of sex-limited (Y or W) chromosome.☆19Aug 1, 2023Updated 2 years ago
- ☆145Apr 19, 2025Updated 10 months ago
- ☆23Jul 9, 2025Updated 7 months ago
- Converts 'MultiQC' Reports into Tidy Data Frames☆19Apr 1, 2024Updated last year
- GraphProt: modelling binding preferences of RNA-binding proteins☆20Jul 19, 2018Updated 7 years ago
- HAST: Haplotype-Resolved Assembly for Synthetic Long Reads Using A Trio-Binning Strategy☆18Apr 20, 2023Updated 2 years ago
- fastx-utils using klib☆20Sep 1, 2020Updated 5 years ago