95 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Uniform Manifold Approximation and Projection | 6.8M | |
| Single-cell analysis in Python. Scales to >100M cells. | 815K | |
| Quick Uncertainty and Entropy from STructural Similarity | 588K | |
| This is an open-source version of the representation engineering framework for s... | 167K | |
| Python library for processing (tandem) mass spectrometry data and for computing ... | 47K | |
| Accelerated, Python-only, single-cell integration benchmarking metrics | 22K | |
| exprmat: Routines for expression matrices | 15K | |
| SCIV algorithm | 11K | |
| Batch balanced KNN | 11K | |
| Python package for systematic assessment of clustering results stability on sing... | 11K | |
| Non-parametric density inference for single-cell analysis. | 9K | |
| Core TDA functionality for BluelightAI Cobalt | 6K | |
| BitBIRCH-Lean, a memory-efficient implementation of BitBIRCH designed for high-t... | 4K | |
| Mapping Vector Field of Single Cells | 4K | |
| Use bacpipe to streamline the process of generating embeddings and analysing you... | 3K | |
| A library for comparing embedding spaces | 3K | |
| A neural network framework for researchers studying acoustic communication | 2K | |
| A Python package using Gromov-Wasserstein distance to compare cell shapes | 2K | |
| python library for single-cell loop analysis | 2K | |
| Deciphering the Complexity of Spatial-Temporal Transcriptomic and Proteomics via... | 1K | |
| single cell foundation model for Gene network inference and more | 1K | |
| The single T cell annotation tool for scRNA-seq data | 1K | |
| A re-implementation of the hotspotsc package using wrappers around Rust code. | 1K | |
| Hax - A suite for Heterogeneity analysis for CryoEM data | 1K | |
| sequence | 1K | |
| Population and element-level analysis of neuronal computations | 1K | |
| Identifying informative genes (and gene modules) in a single-cell dataset. | 1K | |
| Differential abundance and gene expression in single-cell data | 960 | |
| A collection of graph datasets in torch_geometric format. | 754 | |
| Word embeddings with meaningful dimensions for better explainability. | 675 | |
| A GUI for (imaging) mass cyometry analysis predominantly based on the popular St... | 644 | |
| UNAGI: deep generative AI for virtual disease and unsuperivsed in-silico perturb... | 627 | |
| Python module handling calls to UMAP and HDBSCAN for Lorikeet and Rosella | 622 | |
| rt_seg is a Python 3.12.x package for segmenting reasoning traces into coherent ... | 599 | |
| Single-cell differential expression | 586 | |
| Pure Python implementation of SG-t-SNE-Π: Swift Neighbor Embedding of Sparse Sto... | 567 | |
| BackdoorMBTI is an open source project expanding the unimodal backdoor learning ... | 531 | |
| Generalizable UMAP Implementation | 529 | |
| Repository for the clone2vec python package | 515 | |
| scIB metrics, GPU-accelerated using cuML instead of JAX | 495 | |
| Spatiotemporal modeling of spatial transcriptomics | 488 | |
| scPRINT-2 is a Large Cell Model for Gene Network Inference, Denoising and more f... | 463 | |
| Aligned Cross-modal Integration and Characterization of Single-Cell Multiomic Da... | 449 | |
| ML model understanding and repair | 442 | |
| Cell-cell communication prediction for ST data | 404 | |
| A framework for parametric dimensionality reduction | 393 | |
| 山东联通产互AI工具箱 | 390 | |
| Python port of the R monocle3 package (tracks cole-trapnell-lab/monocle3 1.4.26 ... | 379 | |
| A benchmarking toolkit for genomic prediction with multiple methods and LLM-powe... | 374 | |
| KAILINss - TOGGLE(KAILIN): Single Cell Fate Tracing tools | 333 |
