Alternatives and similar repositories for SnapATAC2

Users that are interested in SnapATAC2 are comparing it to the libraries listed below

• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆229Updated 5 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆206Updated 9 months ago
• theislab / diffxpy
  Differential expression analysis for single-cell RNA-seq data.
  ☆199Updated 4 months ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆313Updated this week
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆338Updated 11 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆284Updated 2 years ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆154Updated 4 years ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆385Updated 2 weeks ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆204Updated last year
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆317Updated 2 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 4 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆186Updated 7 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆433Updated last year
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆161Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆171Updated this week
• IanevskiAleksandr / sc-type
  ☆269Updated 8 months ago
• navinlabcode / copykat
  ☆242Updated last year
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆285Updated 2 years ago
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆234Updated last week
• brianhie / scanorama
  Panoramic stitching of single cell data
  ☆285Updated last year
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆218Updated this week
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆143Updated 3 years ago
• STOmics / SAW
  ☆166Updated 9 months ago
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆259Updated 7 months ago
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆219Updated this week
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆186Updated 3 years ago
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆172Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆128Updated last year
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆161Updated last week