STOmics / Stereopy

Related projects ⓘ

Alternatives and complementary repositories for Stereopy

• navinlabcode / copykat
  ☆207Updated 4 months ago
• STOmics / SAW
  ☆141Updated last month
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆293Updated 5 months ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆184Updated 7 months ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆295Updated 3 months 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…
  ☆182Updated 2 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆382Updated 8 months ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆277Updated last year
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆333Updated 3 weeks ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆278Updated this week
• kaizhang / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆228Updated 2 weeks ago
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆308Updated 5 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆143Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆217Updated last year
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆169Updated last month
• IanevskiAleksandr / sc-type
  ☆237Updated 7 months ago
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆195Updated last month
• sunduanchen / Scissor
  Scissor package
  ☆182Updated 6 months ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆122Updated 2 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆131Updated 2 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆259Updated 2 years ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆138Updated 3 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆132Updated 2 years ago
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆187Updated this week
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆306Updated last year
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆273Updated 4 years ago
• Teichlab / cellphonedb
  ☆342Updated 2 years ago
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆287Updated last month
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆116Updated 6 months ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆177Updated 3 years ago