Alternatives and similar repositories for pypath

Users that are interested in pypath are comparing it to the libraries listed below

• churchmanlab / genewalk
  GeneWalk identifies relevant gene functions for a biological context using network representation learning
  ☆133Updated last year
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆88Updated last month
• scverse / muon
  muon is a multimodal omics Python framework
  ☆257Updated 3 weeks ago
• broadinstitute / depmap_omics
  What you need to process the Quarterly DepMap-Omics releases from Terra
  ☆125Updated 2 months ago
• fraenkel-lab / OmicsIntegrator2
  Prize-Collecting Steiner Forests for Interactomes
  ☆62Updated last year
• baryshnikova-lab / safepy
  Python implementation of Spatial Analysis of Functional Enrichment (SAFE)
  ☆45Updated 3 months ago
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆242Updated this week
• sidhomj / DeepTCR
  Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
  ☆122Updated 2 months ago
• slowkow / awesome-vdj
  📚 Tools and databases for analyzing HLA and VDJ genes.
  ☆233Updated 2 months ago
• uio-bmi / immuneML
  immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.
  ☆73Updated last week
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆241Updated this week
• mousepixels / sanbomics
  bioinformatics plotting and tools
  ☆59Updated last year
• Teichlab / bbknn
  Batch balanced KNN
  ☆176Updated 2 years ago
• MaayanLab / blitzgsea
  Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …
  ☆57Updated 6 months ago
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆57Updated this week
• biothings / mygene.py
  mygene is an easy-to-use Python wrapper to access MyGene.Info services.
  ☆95Updated 10 months ago
• theislab / sfaira
  data and model repository for single-cell data
  ☆136Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆149Updated last year
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆114Updated last week
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆132Updated 10 months ago
• xinyu-dev / igblast
  Detailed explanation on how to setup database for NCBI IgBlast executable, and using it in Python
  ☆30Updated 3 years ago
• antigenomics / vdjdb-db
  🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!
  ☆145Updated last month
• JamieHeather / stitchr
  Stitchr - a Python script to stitch together coding TCR nucleotide sequences from V, J, and CDR3 info
  ☆60Updated 3 months ago
• bowang-lab / BIONIC
  Biological Network Integration using Convolutions
  ☆63Updated last year
• Genentech / BRAID
  BRAID is a department within Genentech dedicated to advancing biological and clinical sciences through artificial intelligence.
  ☆216Updated 3 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆146Updated 2 years ago
• phbradley / tcr-dist
  Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
  ☆86Updated 4 years ago
• cmap / lincs-workshop-2020
  CMap Notebooks for LINCS 2020 Workshop
  ☆49Updated 4 years ago
• svalkiers / clusTCR
  CDR3 clustering module providing a new method for fast and accurate clustering of large data sets of CDR3 amino acid sequences, and offer…
  ☆54Updated last year
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆154Updated last year