Alternatives and similar repositories for SCTransformPy:

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

• lilab-bcb / harmony-pytorch
  ☆51Updated last year
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆54Updated this week
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆44Updated 7 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆48Updated 3 weeks ago
• YosefLab / popV
  ☆69Updated this week
• theislab / spatial_scog_workshop_2022
  Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022
  ☆51Updated 2 years ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆67Updated last month
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆60Updated 9 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆62Updated last year
• snehamitra / SCARlink
  ☆48Updated 5 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 8 months ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆66Updated last year
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆102Updated last year
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆28Updated 2 months ago
• czbiohub-sf / tabula-sapiens
  Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens
  ☆41Updated last year
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆25Updated last month
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆58Updated 9 months ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆59Updated last month
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆105Updated last week
• saketkc / pySCTransform
  Python package to perform normalization and variance-stabilization of single-cell data
  ☆23Updated 2 years ago
• SchubertLab / mvTCR
  ☆50Updated 3 months ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆98Updated last year
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆109Updated last year
• whhudson / spatialTCR
  ☆12Updated 2 years ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆51Updated 10 months ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆59Updated 3 weeks ago
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆83Updated 5 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆96Updated last week
• immunogenomics / RA_Atlas_CITEseq
  RA Synovial Single-cell Multimodal Cell Atlas
  ☆12Updated 11 months ago