Alternatives and similar repositories for PyWGCNA

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

• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆419Updated 2 weeks ago
• theislab / scarches
  Reference mapping for single-cell genomics
  ☆386Updated last month
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆380Updated 2 months ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆392Updated 9 months ago
• theislab / scib
  Benchmarking analysis of data integration tools
  ☆388Updated last month
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆234Updated this week
• theislab / diffxpy
  Differential expression analysis for single-cell RNA-seq data.
  ☆204Updated last week
• scverse / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆294Updated this week
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆242Updated this week
• STOmics / Stereopy
  A toolkit of spatial transcriptomic analysis.
  ☆262Updated last week
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆225Updated this week
• scverse / muon
  muon is a multimodal omics Python framework
  ☆252Updated last week
• slowkow / awesome-vdj
  📚 Tools and databases for analyzing HLA and VDJ genes.
  ☆233Updated 3 weeks ago
• Winnie09 / GPTCelltype
  ☆213Updated last year
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆267Updated 11 months ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆239Updated 4 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆444Updated last year
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆224Updated this week
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆326Updated 8 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆299Updated 2 weeks ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 4 years ago
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆237Updated 9 months ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆327Updated last month
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆471Updated 8 months ago
• zqfang / GSEApy
  Gene Set Enrichment Analysis in Python
  ☆667Updated last month
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆155Updated 3 years ago
• brianhie / scanorama
  Panoramic stitching of single cell data
  ☆292Updated 3 months ago
• IanevskiAleksandr / sc-type
  ☆275Updated 11 months ago
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆195Updated 5 years ago
• mdozmorov / HiC_data
  A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
  ☆196Updated 4 months ago