saezlab / pypathLinks
Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotations and intercellular communication roles.
☆157Updated 2 weeks ago
Alternatives and similar repositories for pypath
Users that are interested in pypath are comparing it to the libraries listed below
Sorting:
- Unified knowledge-driven network inference from omics data☆91Updated this week
- GeneWalk identifies relevant gene functions for a biological context using network representation learning☆133Updated last year
- What you need to process the Quarterly DepMap-Omics releases from Terra☆125Updated this week
- Prize-Collecting Steiner Forests for Interactomes☆63Updated last year
- muon is a multimodal omics Python framework☆262Updated 3 weeks ago
- mygene is an easy-to-use Python wrapper to access MyGene.Info services.☆97Updated last year
- Biological Network Integration using Convolutions☆64Updated 2 years ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆174Updated 4 months ago
- bioinformatics plotting and tools☆60Updated last year
- immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.☆74Updated last week
- A scanpy extension to analyse single-cell TCR and BCR data.☆245Updated last week
- Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data☆123Updated 4 months ago
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆59Updated 8 months ago
- Python interface to running command-line and web-based MHC binding predictors☆99Updated last year
- 📚 Tools and databases for analyzing HLA and VDJ genes.☆236Updated last month
- CMap Notebooks for LINCS 2020 Workshop☆49Updated 4 years ago
- Python package to perform enrichment analysis from omics data.☆254Updated this week
- Batch balanced KNN☆177Updated 2 years ago
- ☆156Updated last year
- Assorted tools for interacting with .gct, .gctx files and other Connectivity Map (Broad Institute) data/tools☆140Updated 3 years ago
- Detailed explanation on how to setup database for NCBI IgBlast executable, and using it in Python☆32Updated 3 years ago
- predicting expression effects of human genome variants ab initio from sequence☆132Updated last year
- Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.☆84Updated 4 years ago
- 🗂️ [vdjdb.com is up and running!] Git-based TCR database storage & management. Submissions welcome!☆150Updated last week
- Episcanpy: Epigenomics Single Cell Analysis in Python☆149Updated last year
- netZooPy is a network biology package implemented in Python.☆94Updated last month
- This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'☆96Updated 2 years ago
- Python implementation of Spatial Analysis of Functional Enrichment (SAFE)☆45Updated 5 months ago
- BRAID is a department within Genentech dedicated to advancing biological and clinical sciences through artificial intelligence.☆219Updated 5 months ago
- CZ CELLxGENE Discover Census☆117Updated 3 weeks ago