Alternatives and similar repositories for singleCellHaystack-py

Users that are interested in singleCellHaystack-py are comparing it to the libraries listed below

• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆35Updated 4 years ago
• GreenleafLab / Brain_ASD
  ☆11Updated 4 years ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆56Updated 8 months ago
• mckennalab / SingleCellLineage
  Updated scripts and pipelines for processing GESTALT data at single-cell resolution
  ☆20Updated 4 years ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated 2 years ago
• almaan / eggplant
  ☆22Updated 3 years ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last year
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆65Updated this week
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆22Updated 4 years ago
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 2 weeks ago
• ChenWeiyan / LandSCENT
  Landscape Single Cell Entropy
  ☆21Updated 5 years ago
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆31Updated 11 months ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated 2 months ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆53Updated 2 months ago
• theislab / moslin
  Code, data and analysis for moslin.
  ☆15Updated last year
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆39Updated 5 years ago
• quadbio / VoxHunt
  VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps
  ☆47Updated last year
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆25Updated 3 years ago
• loosolab / scanpro
  A modular tool for proportion analysis in single-cell sequencing data
  ☆24Updated 4 months ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆26Updated 2 years ago
• Teichlab / sctk
  ☆45Updated last week
• JinmiaoChenLab / FastIntegration
  FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
  ☆23Updated last year
• dyxmvp / Spatial_ATAC-seq
  ☆23Updated 2 years ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆34Updated last month
• GuignardLab / sc3D
  Spatial Single Cell transcriptomic library
  ☆18Updated 3 weeks ago
• vanheeringen-lab / scepia
  Single Cell Epigenome-based Inference of Activity
  ☆19Updated 2 years ago
• theMILOlab / SPATA
  SPATA Package for spatial gene expression analysis
  ☆21Updated 3 years ago