Alternatives and similar repositories for scRNASeqPipeline

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

• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆181Updated last year
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆103Updated 2 years ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆132Updated last year
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆62Updated 4 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆97Updated 2 years ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆95Updated 5 years ago
• harvardinformatics / ATAC-seq
  ☆139Updated 6 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• farrellja / URD
  URD - Reconstruction of Branching Developmental Trajectories
  ☆124Updated 4 years ago
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆86Updated last year
• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆88Updated 5 years ago
• rpolicastro / scProportionTest
  ☆73Updated 2 years ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆86Updated 6 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆95Updated 4 years ago
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆189Updated 2 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆92Updated 3 years ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆193Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆202Updated last year
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆195Updated 2 months ago
• JiekaiLab / scTE
  ☆110Updated last year
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆112Updated 2 years ago
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆113Updated last month
• czbiohub-sf / scell_lung_adenocarcinoma
  This is the repository that contains the analysis of the lung adenocarcinoma single cell dataset
  ☆150Updated 4 years ago
• ggjlab / scMCA
  Mouse cell atlas
  ☆61Updated 5 years ago
• huayc09 / SeuratExtend
  ☆173Updated 3 weeks ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆183Updated last week
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆91Updated 2 years ago
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆188Updated 3 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆132Updated 11 months ago