Alternatives and similar repositories for scRNASeqPipeline:

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

• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆136Updated 3 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆169Updated 8 months ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆91Updated 2 years ago
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆101Updated 2 years ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆122Updated 10 months ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆60Updated 3 years ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 5 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 4 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆140Updated 3 years ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• JiekaiLab / scTE
  ☆105Updated 10 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆184Updated last month
• rpolicastro / scProportionTest
  ☆61Updated last year
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆92Updated 4 years ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆91Updated 5 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆194Updated 9 months ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆190Updated 2 years ago
• livnatje / ImmuneResistance
  This resource provides the code developed in the study of Jerby-Arnon _et al. "Single-cell RNA-seq of melanoma ecosystems reveals sources…
  ☆72Updated 6 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆266Updated 2 years ago
• harvardinformatics / ATAC-seq
  ☆127Updated 6 years ago
• velocyto-team / velocyto.R
  RNA velocity estimation in R
  ☆186Updated last year
• crazyhottommy / pyflow-ATACseq
  ATAC-seq snakemake pipeline
  ☆86Updated 5 years ago
• ggjlab / scMCA
  Mouse cell atlas
  ☆60Updated 4 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆122Updated 4 months ago
• TrinityCTAT / Trinity_CTAT
  ☆116Updated last year
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆209Updated last month
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆121Updated 2 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆91Updated 2 years ago
• navinlabcode / copykat
  ☆226Updated 8 months ago