42 dependents
| Package | Description | Downloads/month |
|---|---|---|
| Analysis tools for single-cell metabolome data. | 15K | |
| exprmat: Routines for expression matrices | 15K | |
| SCIV algorithm | 11K | |
| Opinionated, report-first CLI for single-cell and multi-omics analysis | 5K | |
| Ordered Niche Trajectory Construction | 5K | |
| Conveniently process a dictionary of anndatas | 2K | |
| A toolkit of spatial transcriptomic analysis. | 2K | |
| Consensus prediction of cell type labels with popV | 2K | |
| Scripts for using scanpy | 1K | |
| scBOA: scRNA-seq Bayesian Optimization and Analysis pipeline | 1K | |
| 975 | ||
| Port of symphony algorithm of single-cell reference atlas mapping to Python | 802 | |
| 763 | ||
| Celline - A comprehensive toolkit for single-cell RNA sequencing data analysis | 734 | |
| Single cell analysis of B cells | 541 | |
| A package for spatial lipidomics data analysis including preprocessing, embeddin... | 501 | |
| SCIV: Unveiling the pivotal cell types involved in variant function regulation a... | 469 | |
| A Python implementation of the LEMUR algorithm for analyzing multi-condition sin... | 444 | |
| Batch-effect correction methods for MALDI-TOF spectra in clinical AMR prediction... | 433 | |
| Convenient and user-friendly package to streamline common workflows in single-ce... | 404 | |
| Panpipes - multimodal single cell pipelines | 396 | |
| Interactive and integrated analysis of multiplexed tissue microarrays | 393 | |
| CLI for the scanpy package | 371 | |
| A pure-Python re-implementation of hdWGCNA for weighted gene co-expression netwo... | 345 | |
| Computational tools to enable task-centric cell engineering | 339 | |
| single cell analysis tool kit based on scanpy | 312 | |
| Tools for curating single cell data | 248 | |
| A graph deep learning based tool to align single cell spatial omics data | 240 | |
| Package for PCA-based spatial domain identification in single-cell spatial trans... | 223 | |
| sPYce is a Python package for the cross-species integration of single-nucleus AT... | 218 | |
| B cell repertoire analysis and lineage tracking in spatial omics | 191 | |
| 189 | ||
| scDistill: Knowledge distillation for single-cell batch correction with covariat... | 181 | |
| Reproducible boilerplate-free workflow management for Scanpy-based scRNA-seq ana... | 178 | |
| STDrug: A Computational Method to Use Spatial Transcriptomics to Aid Personalize... | 134 | |
| Data centric algorithm agnostic cytometry analysis framework | 131 | |
| Utilities for preprocessing, integration, and visualization of single-cell and s... | 107 | |
| A Python package for single-cell RNA-seq cell type annotation using marker-based... | 105 | |
| Probabilistic Cell Type Deconvolution of Bulk RNA-seq | 98 | |
| Code for BetterCodeBetterScience book | 97 | |
| extract orthologous maps (short: orthomap) from OrthoFinder output for query spe... | 57 | |
| SMaSH: A scalable, general marker gene identification framework for single-cell ... | 48 |
