Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data
☆11Jul 11, 2024Updated last year
Alternatives and similar repositories for SINGE
Users that are interested in SINGE are comparing it to the libraries listed below
Sorting:
- Code for the analysis performed in the paper "Transcription factor stoichiometry, motif affinity and syntax regulate single-cell chromati…☆12Oct 16, 2025Updated 4 months ago
- ☆10Feb 12, 2019Updated 7 years ago
- R and MATLAB scripts for MAGICAL☆11Jun 26, 2024Updated last year
- Calculation of distance metrics for matrices☆26Mar 1, 2019Updated 7 years ago
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆34Jun 19, 2025Updated 8 months ago
- ☆16Jun 17, 2021Updated 4 years ago
- Source code and data supporting "Evaluating measures of association for single-cell transcriptomics"☆16Feb 25, 2019Updated 7 years ago
- Scripts to reproduce analyses of tradeSeq paper.☆16Feb 5, 2020Updated 6 years ago
- SINCERITIES is a tool for inferring gene regulatory networks from time-stamped cross-sectional single cell transcriptional expression pro…☆14Oct 16, 2017Updated 8 years ago
- A robust DE test method that accounts for the uncertainty in pseudotime inference☆39Mar 2, 2025Updated last year
- Functional and Learnable Cell dynamicS☆21May 13, 2025Updated 9 months ago
- Research Paper: "Graph Contrastive Learning as a Versatile Foundation for Advanced scRNA-seq Data Analysis"☆10Nov 20, 2024Updated last year
- Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data☆109Jul 3, 2023Updated 2 years ago
- Parse ArchR arrow files to anndata h5ad☆16Dec 14, 2023Updated 2 years ago
- Collection of analysis methods for small count data generated by rafalab members (the methods, not the data).☆22Jul 10, 2024Updated last year
- Functional Inference of Gene Regulation☆51Jul 5, 2024Updated last year
- ClusterMap is an R package to analyze and compare two or more single cell expression datasets.☆20Jan 17, 2023Updated 3 years ago
- Single cell omics biology annotations☆54Updated this week
- SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation☆47Dec 12, 2019Updated 6 years ago
- scDoRI (single-cell Deep multi-Omic Regulatory Inference) is a deep learning model to infer enhancer-mediated gene regulatory networks (e…☆29Aug 20, 2025Updated 6 months ago
- Use an ensemble of variant callers to call variants from ATAC-seq data☆23May 14, 2025Updated 9 months ago
- Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data☆26Jan 11, 2023Updated 3 years ago
- Tools for correcting single cell barcodes for various scATAC-seq techniques and creating fragment files and spltting BAM files per cluste…☆29Feb 16, 2026Updated 2 weeks ago
- ☆33Oct 4, 2024Updated last year
- Human cortical cell types☆25Aug 21, 2019Updated 6 years ago
- Analytical tools and pipelines for bulk and single cell epigenomic and human genetic data☆27Nov 17, 2020Updated 5 years ago
- ☆71Apr 17, 2024Updated last year
- SPATA Package for spatial gene expression analysis☆21May 6, 2022Updated 3 years ago
- ☆13Updated this week
- Gene regulatory network inference for RNA velocity and pseudotime data☆28Nov 6, 2025Updated 3 months ago
- Essential Python skills for using transformers on Colab☆11May 13, 2022Updated 3 years ago
- Universal Single-Cell Genomics Preprocessing package☆48Feb 21, 2026Updated last week
- ☆30Apr 11, 2023Updated 2 years ago
- BEELINE: evaluation of algorithms for gene regulatory network inference☆208Updated this week
- Classification of Single cells by Transfer Learning☆10Oct 11, 2025Updated 4 months ago
- ☆10Dec 4, 2023Updated 2 years ago
- ☆10Aug 29, 2023Updated 2 years ago
- TikZ illustrations, and graphical packages.☆17Feb 24, 2026Updated last week
- Filtering of Poison noise on a single-cell RNA-seq UMI count matrix☆80Dec 4, 2025Updated 3 months ago