Python implementation of Spatial Analysis of Functional Enrichment (SAFE)
☆47Aug 26, 2025Updated last year
Alternatives and similar repositories for safepy
Users that are interested in safepy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Biological Network Integration using Convolutions☆66Jan 17, 2024Updated 2 years ago
- fast bgen parser for python☆18Sep 19, 2026Updated 3 weeks ago
- A Python FASTA file Parser and Writer.☆17Sep 3, 2022Updated 4 years ago
- The R/Python scripts for the analysis of single-cell RNA-seq data from COVID-19 patients☆10Dec 16, 2020Updated 5 years ago
- ☆13Dec 29, 2021Updated 4 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Bam to Pandas DataFrame, quickly☆13May 10, 2025Updated last year
- ☆13May 14, 2019Updated 7 years ago
- ScaleSC: A superfast and scalable single cell RNA-seq data analysis pipeline powered by GPU. https://doi.org/10.1093/bioadv/vbaf167☆41Jan 10, 2026Updated 9 months ago
- ☆13Jun 18, 2018Updated 8 years ago
- A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input ge…☆21Oct 6, 2026Updated last week
- My tidy tuesday kludges☆12Mar 29, 2023Updated 3 years ago
- The multiplex network of human diseases☆15Jul 3, 2025Updated last year
- A Guide to the Analysis of Spatial Transcriptomics☆12Jul 29, 2024Updated 2 years ago
- Code for reproducing "Exploring genetic interaction manifolds constructed from rich single-cell phenotypes"☆72Jun 6, 2020Updated 6 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- A Python package for gene network analysis☆33Jun 22, 2022Updated 4 years ago
- Benchmarking gene embeddings on single, paired, and gene set tasks☆23Nov 29, 2025Updated 10 months ago
- ☆16Feb 25, 2017Updated 9 years ago
- Tools for working with BUS files☆102May 27, 2025Updated last year
- Higher level repo for aggregating all of Atlas workflow logic for Single Cell☆14Jul 9, 2026Updated 3 months ago
- Graph Transformers for Large Graphs☆22Apr 26, 2024Updated 2 years ago
- A Python toolkit for setting up benchmarking dataset using biomedical networks☆22Oct 6, 2026Updated last week
- Quarto template for Public Library of Science☆24Jul 15, 2026Updated 3 months ago
- Landscape Single Cell Entropy☆23Aug 24, 2020Updated 6 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- An App to provision the App of Device Owner on other devices☆12Mar 13, 2018Updated 8 years ago
- Text Wrapping around Figures in Quarto☆12Dec 27, 2024Updated last year
- Package to preprocess ontologies and train OntoVAE models.☆16Jan 7, 2025Updated last year
- A python tool to do comparative analysis of mulitple single cell datasets.☆21Oct 25, 2019Updated 6 years ago
- Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)☆27Jul 19, 2022Updated 4 years ago
- easy access to benchmark datasets☆51Aug 17, 2018Updated 8 years ago
- MATLAB implementation of Gene Set Enrichment Analysis (GSEA) method for finding pathways which can show more complex relation between cha…☆10Sep 7, 2022Updated 4 years ago
- Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotat…☆164Updated this week
- Scripts to run and benchmark scRNA-seq cell cluster labeling methods☆48May 23, 2020Updated 6 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A script to make downloading of SRA/GEO data easier☆34Jun 30, 2026Updated 3 months ago
- ☆19May 27, 2025Updated last year
- 🍊🔬 Orange add-on for gene expression of single cell data☆17Jun 22, 2026Updated 3 months ago
- surrogate quantitative interpretability for deepnets☆27Aug 28, 2026Updated last month
- The javascript implementation of the MMTF format.☆11Jun 26, 2017Updated 9 years ago
- Public repository for building and analyzing protein complex maps☆12Dec 6, 2016Updated 9 years ago
- Demo to show how to reuse a document using different metadata.☆14Aug 17, 2026Updated last month