Alternatives and similar repositories for paperbee

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

• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆46Updated last week
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆50Updated 10 months ago
• lilab-bcb / harmony-pytorch
  ☆55Updated 3 months ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆99Updated 3 months ago
• YosefLab / Cassiopeia
  A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
  ☆93Updated last month
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆109Updated this week
• rajewsky-lab / spacemake
  ☆44Updated 3 weeks ago
• MaayanLab / blitzgsea
  Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …
  ☆51Updated 3 months ago
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆75Updated last month
• aertslab / CREsted
  CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…
  ☆44Updated 2 weeks ago
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆93Updated last month
• Maarten-vd-Sande / qnorm
  Fast-ish (and correct!) quantile normalization in Python.
  ☆31Updated 3 months ago
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆64Updated last year
• epigen / CellWhisperer
  CellWhisperer bridges the gap between transcriptomics data and natural language, enabling intuitive interaction with scRNA-seq datasets
  ☆60Updated 10 months ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆29Updated 2 years ago
• saezlab / omnipath
  Python client for the OmniPath web service
  ☆45Updated 2 months ago
• noamteyssier / adpbulk
  pseudobulking on an AnnData object
  ☆34Updated 5 months ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆89Updated 10 months ago
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆54Updated last week
• epigenelabs / inmoose
  InMoose is the INtegrated Multi Omic Open Source Environment. It is a collection of tools for the analysis of omic data.
  ☆103Updated 2 weeks ago
• mostafavilabuw / EnformerAssessment
  ☆24Updated last year
• saketkc / pySCTransform
  Python package to perform normalization and variance-stabilization of single-cell data
  ☆24Updated last month
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆29Updated last month
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆122Updated last week
• BIMSBbioinfo / flexynesis
  A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
  ☆57Updated this week
• theislab / DRVI
  Unsupervised Deep Disentangled Representation of Single-Cell Omics
  ☆48Updated this week
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆27Updated last week
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆49Updated 7 months ago
• buenrostrolab / scPrinter
  ☆45Updated this week
• wckdouglas / diffexpr
  Porting DESeq2 into python via rpy2
  ☆68Updated 2 years ago