Alternatives and similar repositories for pyComBat:

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

• epigenelabs / inmoose
  InMoose is the INtegrated Multi Omic Open Source Environment. It is a collection of tools for the analysis of omic data.
  ☆71Updated last month
• brentp / combat.py
  python / numpy / pandas / patsy version of ComBat for removing batch effects.
  ☆104Updated 6 years ago
• gregbellan / Stabl
  ☆55Updated 4 months ago
• wckdouglas / diffexpr
  Porting DESeq2 into python via rpy2
  ☆68Updated last year
• KrishnaswamyLab / SingleCellWorkshop
  ☆90Updated 4 years ago
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆173Updated 4 years ago
• KevinMenden / scaden
  Deep Learning based cell composition analysis with Scaden.
  ☆76Updated 4 months ago
• lilab-bcb / harmony-pytorch
  ☆51Updated this week
• saezlab / decoupler-py
  Python package to perform enrichment analysis from omics data.
  ☆182Updated last month
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆142Updated 3 months ago
• dpeerlab / PhenoGraph
  Subpopulation detection in high-dimensional single-cell data
  ☆69Updated 4 years ago
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆85Updated last month
• theislab / spatial_scog_workshop_2022
  Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022
  ☆53Updated 2 years ago
• r-bioinformatics / edgePy
  A Python implementation of edgeR for differential expression analysis
  ☆102Updated 5 years ago
• Cloufield / gwaslab
  A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/
  ☆192Updated this week
• klarman-cell-observatory / scPhere
  ☆98Updated last year
• AI4SCR / ATHENA
  ☆31Updated 2 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆54Updated last week
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆150Updated 2 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆99Updated last year
• BorgwardtLab / reComBat
  reComBat package to correct batch effects
  ☆12Updated last year
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆60Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆63Updated last month
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆100Updated last month
• nitzanlab / biolord
  ☆76Updated 7 months ago
• openproblems-bio / openproblems-v2
  Formalizing and benchmarking open problems in single-cell genomics
  ☆56Updated 3 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆129Updated 2 years ago
• jacoblevine / PhenoGraph
  Subpopulation detection in high-dimensional single-cell data
  ☆137Updated 4 years ago
• bedapub / besca
  BESCA (Beyond Single Cell Analysis) offers python functions for single-cell analysis
  ☆50Updated 2 weeks ago
• biothings / mygene.py
  mygene is an easy-to-use Python wrapper to access MyGene.Info services.
  ☆87Updated 2 months ago