Alternatives and similar repositories for scATAC-seq_notes:

Users that are interested in scATAC-seq_notes are comparing it to the libraries listed below

• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆122Updated 11 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆152Updated 2 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆140Updated 3 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆138Updated 3 years ago
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆54Updated 11 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆196Updated 6 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…
  ☆212Updated 2 months ago
• neurorestore / Libra
  ☆163Updated 7 months ago
• erilu / bulk-rnaseq-analysis
  A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…
  ☆80Updated 4 years ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆114Updated 6 months ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆134Updated 3 months ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆91Updated 2 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆182Updated 4 years ago
• JiekaiLab / scTE
  ☆105Updated 11 months ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆88Updated last month
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆161Updated last year
• sunduanchen / Scissor
  Scissor package
  ☆214Updated 10 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆102Updated last week
• Swarbricklab-code / BrCa_cell_atlas
  Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".
  ☆113Updated 6 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆142Updated 2 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆156Updated last week
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆122Updated 5 months ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 5 years ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆102Updated 2 months ago
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆132Updated last week
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆52Updated last year
• swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
  Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
  ☆93Updated 3 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆197Updated last year
• huayc09 / SeuratExtend
  ☆130Updated last week
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆53Updated this week