Gene regulatory network containing signed transcription factor-target gene interactions
☆103May 27, 2025Updated 9 months ago
Alternatives and similar repositories for CollecTRI
Users that are interested in CollecTRI are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R package to infer biological activities from omics data using a collection of methods.☆286Dec 16, 2025Updated 3 months ago
- Supplementary information for "Population-level comparisons of gene regulatory networks modeled on high-throughput single-cell transcript…☆11Jan 15, 2024Updated 2 years ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆97Feb 23, 2026Updated last month
- Multiome GRN inference.☆133Apr 19, 2024Updated last year
- Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.☆97Nov 30, 2023Updated 2 years ago
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆83Updated this week
- Analysis of cell-cell communication at single-cell resolution☆106Sep 10, 2024Updated last year
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆182Aug 12, 2025Updated 7 months ago
- ☆12Apr 16, 2021Updated 4 years ago
- R package to access DoRothEA's regulons☆155Feb 24, 2024Updated 2 years ago
- A tool for removing doublets from single-cell RNA-seq data☆75Dec 2, 2020Updated 5 years ago
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆227Updated this week
- Metacells - Single-cell RNA Sequencing Analysis☆119Sep 27, 2024Updated last year
- Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.☆38Jan 22, 2026Updated 2 months ago
- Assessing the purity of single cell population☆143Jun 3, 2022Updated 3 years ago
- R client for the OmniPath web service☆160Updated this week
- LIANA: a LIgand-receptor ANalysis frAmework☆234Aug 7, 2024Updated last year
- R package for integrating and analyzing multiple single-cell datasets☆427Feb 4, 2026Updated last month
- A modular tool for proportion analysis in single-cell sequencing data☆25Feb 26, 2026Updated 3 weeks ago
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆183Mar 16, 2026Updated last week
- AUCell: score single cells with gene regulatory networks☆189Mar 9, 2024Updated 2 years ago
- Spatial Transcriptomics Capture Location Deconvolution☆203Oct 20, 2025Updated 5 months ago
- This is the alpha version of the CellOracle package☆429Feb 3, 2026Updated last month
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆384Jul 30, 2025Updated 7 months ago
- ☆23Mar 12, 2026Updated last week
- Methods to discover gene programs on single-cell data☆176Sep 26, 2025Updated 5 months ago
- A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression☆227May 29, 2025Updated 9 months ago
- A novel machine learning pipeline to analyse spatial transcriptomics data☆242Mar 12, 2026Updated last week
- STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data☆180Dec 18, 2021Updated 4 years ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆470Jun 6, 2025Updated 9 months ago
- High dimensional weighted gene co-expression network analysis☆468Mar 13, 2026Updated last week
- Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data☆51Jan 12, 2024Updated 2 years ago
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆326Apr 23, 2024Updated last year
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Dec 3, 2024Updated last year
- Gene Expression Decomposition and Integration☆19Feb 9, 2026Updated last month
- NicheNet: predict active ligand-target links between interacting cells☆630Nov 12, 2025Updated 4 months ago
- Gene set scoring for single-cell data☆185Feb 11, 2026Updated last month
- Tool to parse fasterq/fastq dump outputs for SRA scRNAseq data☆18Mar 7, 2024Updated 2 years ago
- ☆222May 6, 2024Updated last year