Pandas API for multiple Gene Set Enrichment Analysis implementations in Python (GSEApy, cudaGSEA, GSEA)
☆16Mar 31, 2023Updated 2 years ago
Alternatives and similar repositories for gsea-api
Users that are interested in gsea-api are comparing it to the libraries listed below
Sorting:
- A bioinformatics API to interface with public multi-omics bio databases for wicked fast data integration.☆36Jul 10, 2024Updated last year
- Interpretable model of sub-cellular RNA localization.☆12Dec 19, 2022Updated 3 years ago
- R package for metabolic enzyme enrichment anaylsis☆13Oct 24, 2025Updated 4 months ago
- kvector is a small utility for converting motifs to kmer vectors to compare motifs of different lengths☆10May 29, 2017Updated 8 years ago
- ☆14Dec 7, 2021Updated 4 years ago
- Source code and data for "Causal reasoning over knowledge graphs leveraging drug-perturbed and disease-specific transcriptomic signatures…☆19Jul 3, 2024Updated last year
- FA2021 Bootcamp course website for the incoming cohort of the Bioinformatics & Systems Biology Ph.D. program☆19Sep 16, 2021Updated 4 years ago
- Toolkit for constructing, analyzing, and visualizing data-driven ontologies☆20Jun 21, 2019Updated 6 years ago
- An npm/browser module for easy matching XML and XPath to React Components and other stuff☆19Mar 14, 2023Updated 2 years ago
- Share Apache Arrow datasets between Python and R.☆18Oct 10, 2025Updated 4 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆86Nov 16, 2025Updated 3 months ago
- Analyses for "State of the field in multi-omics research: from computational needs to data mining and sharing"☆28Jul 6, 2023Updated 2 years ago
- NRPSpredictor2 is a program to predict the specificity of bacterial and fungal adenylation domains.☆11Oct 7, 2019Updated 6 years ago
- Access nextflow variables from python scripts or notebooks☆20Apr 11, 2021Updated 4 years ago
- A probabilistic factor model for spatial transcriptomics data with subcellular resolution☆25May 3, 2023Updated 2 years ago
- Bayesian modelling of DNA methylation heterogeneity at single-cell resolution☆24Jan 26, 2024Updated 2 years ago
- marpyter - Marp for JupyterLab☆31Sep 16, 2025Updated 5 months ago
- Image registration (alignment) software for large microscopy images☆27Oct 15, 2023Updated 2 years ago
- Utilities for large scale distributed single cell data processing☆24Jan 20, 2026Updated last month
- Convert JSON Schemas to simple, human-readable Markdown documentation. Repo archived in favor of fork: sbrunner/jsonschema2md2☆27Jul 12, 2023Updated 2 years ago
- [Experimental] Workflow Definition Language (WDL) to CWL☆28Nov 17, 2021Updated 4 years ago
- ☆30Oct 4, 2024Updated last year
- Intersect multiple VCF files with haplotype awareness☆26Mar 14, 2021Updated 4 years ago
- A JupyterLab extension for generating code and interacting with JupyterLab Notebooks via voice commands☆35Mar 29, 2023Updated 2 years ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆76Nov 2, 2025Updated 4 months ago
- Codebase for fine-tuning Llama2 70B to generate math test questions and answers.☆11Aug 30, 2024Updated last year
- R package for pathway analysis in scRNA-seq data☆77Aug 17, 2024Updated last year
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 4 months ago
- MERlin is an extensible analysis pipeline applied to decoding MERFISH data☆35Sep 21, 2021Updated 4 years ago
- This resource provides the code developed in the study of Jerby-Arnon _et al. "Single-cell RNA-seq of melanoma ecosystems reveals sources…☆74Jul 26, 2018Updated 7 years ago
- Repo for paper "CODIS: Benchmarking Context-Dependent Visual Comprehension for Multimodal Large Language Models".☆12Oct 14, 2024Updated last year
- netZooPy is a network biology package implemented in Python.☆95Jan 9, 2026Updated last month
- ☆40Feb 12, 2026Updated 2 weeks ago
- Toolkit for single-cell DNA methylation analysis.☆46Feb 23, 2026Updated last week
- From geospatial to spatial -omics☆100Feb 12, 2026Updated 2 weeks ago
- R scripts and data sets that can be used to reproduce the results presented in the paper "Bayesian additive regression trees with model t…☆10Dec 13, 2022Updated 3 years ago
- A data analysis package for high-dimensional, multi-block data.☆12Jan 13, 2022Updated 4 years ago
- various tools to download, convert and process the full text of scientific articles☆10Apr 2, 2024Updated last year
- scRNA-seq analysis beyond gene annotations using transcriptionally active regions (TARs) generated from sequence alignment data☆10Jul 25, 2022Updated 3 years ago