Alternatives and similar repositories for diffxpy

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

• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆253Updated this week
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆149Updated last year
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆162Updated 5 years ago
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆245Updated this week
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated 2 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 5 years ago
• scverse / muon
  muon is a multimodal omics Python framework
  ☆262Updated 2 weeks ago
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆182Updated last year
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆180Updated last week
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆245Updated 3 weeks ago
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆263Updated last week
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆143Updated this week
• brianhie / scanorama
  Panoramic stitching of single cell data
  ☆295Updated 6 months ago
• Teichlab / bbknn
  Batch balanced KNN
  ☆177Updated 2 years ago
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆234Updated last week
• scverse / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆308Updated this week
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆375Updated 6 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆178Updated 10 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆187Updated 3 weeks ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆171Updated 3 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆230Updated last year
• dpeerlab / spectra
  Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
  ☆186Updated last week
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆198Updated 3 weeks ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆215Updated last year
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆193Updated 2 months ago
• pachterlab / kb_python
  A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
  ☆181Updated 2 weeks ago
• kharchenkolab / conos
  R package for the joint analysis of multiple single-cell RNA-seq datasets
  ☆218Updated last year
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆161Updated last week
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆193Updated 3 years ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆230Updated last year