Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
☆77Jan 23, 2026Updated last month
Alternatives and similar repositories for scnym
Users that are interested in scnym are comparing it to the libraries listed below
Sorting:
- Single cell interactive plotting tools☆24Jun 12, 2020Updated 5 years ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆100Sep 9, 2025Updated 5 months ago
- software to detect doublets☆96Dec 28, 2024Updated last year
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆52Jan 20, 2025Updated last year
- A tool for analyzing trascriptomes of millions of single cells.☆91Jan 23, 2026Updated last month
- A sandbox for benchmarking detection of out-of-reference cells in single-cell genomics data☆14Oct 21, 2024Updated last year
- functions and algorithms for single cell RNA-seq analyses☆12Jan 26, 2021Updated 5 years ago
- Regulatory networks with Direct Information in python☆40Mar 9, 2023Updated 2 years ago
- A Bayesian model for compositional single-cell data analysis☆188Jan 13, 2026Updated last month
- Dynamical systems methods for RNA velocity analysis☆24May 19, 2021Updated 4 years ago
- A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets☆15Apr 13, 2021Updated 4 years ago
- represent each cell in UMAP plots as a pie chart☆16Sep 27, 2021Updated 4 years ago
- Comparison of dimensionality reduction methods☆30Mar 24, 2020Updated 5 years ago
- Maximum mean discrepancy comparisons for single cell profiling experiments☆19Feb 9, 2022Updated 4 years ago
- ☆11Feb 18, 2019Updated 7 years ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,573Updated this week
- ☆48Jun 21, 2019Updated 6 years ago
- Framework for integrating heterogeneous modalities of data☆17Sep 17, 2022Updated 3 years ago
- 𝒫robabilistic modeling of RNA velocity ⬱☆49Feb 16, 2026Updated 2 weeks ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆380Jul 30, 2025Updated 7 months ago
- CellAnn☆12Nov 3, 2023Updated 2 years ago
- Population balance analysis☆44Apr 25, 2019Updated 6 years ago
- SIMBA: SIngle-cell eMBedding Along with features☆66Oct 16, 2024Updated last year
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆161Jan 27, 2026Updated last month
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆87Jun 7, 2022Updated 3 years ago
- an efficient data integration method for multiple spatial transcriptomics data with non- cluster-relevant effects such as the complex batc…☆12Dec 15, 2025Updated 2 months ago
- R interface to megadepth: BigWig and BAM related utilities☆13Dec 12, 2024Updated last year
- easy access to benchmark datasets☆50Aug 17, 2018Updated 7 years ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆67Jul 8, 2025Updated 7 months ago
- Demultiplexing pooled scRNA-seq data with or without genotype reference☆96Apr 11, 2025Updated 10 months ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆247Jan 16, 2026Updated last month
- Python implementation of the Loom file format - http://loompy.org☆148Dec 16, 2024Updated last year
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆115Sep 29, 2025Updated 5 months ago
- ☆71Jan 18, 2023Updated 3 years ago
- Examples of single-cell genomic analysis accelerated with RAPIDS☆346Aug 27, 2025Updated 6 months ago
- Fast reconstruction of spatial networks from bioimages.☆26Apr 25, 2025Updated 10 months ago
- An interface for Nested Stochastic Block Model for single cell analysis☆37Sep 30, 2025Updated 5 months ago
- CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology☆68Jul 8, 2023Updated 2 years ago
- spatial transcriptome, single cell☆73Mar 18, 2023Updated 2 years ago