Alternatives and similar repositories for Drop-seq

Users that are interested in Drop-seq are comparing it to the libraries listed below

• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 6 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆180Updated last year
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆188Updated 9 months ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆146Updated last year
• kharchenkolab / numbat
  Haplotype-aware CNV analysis from single-cell RNA-seq
  ☆191Updated last month
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆92Updated 3 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.
  ☆103Updated 2 years ago
• farrellja / URD
  URD - Reconstruction of Branching Developmental Trajectories
  ☆124Updated 4 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆167Updated last year
• TrinityCTAT / Trinity_CTAT
  ☆117Updated last year
• JiekaiLab / scTE
  ☆109Updated last year
• maximilianh / cellBrowser
  main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datase…
  ☆112Updated 2 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆126Updated last year
• tallulandrews / scRNASeqPipeline
  ☆118Updated 7 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• 10XGenomics / vartrix
  Single-Cell Genotyping Tool
  ☆210Updated last year
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆132Updated 9 months ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆64Updated last year
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated this week
• rpolicastro / scProportionTest
  ☆71Updated 2 years ago
• statgen / demuxlet
  Genetic multiplexing of barcoded single cell RNA-seq
  ☆129Updated last year
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆291Updated 2 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆96Updated 2 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆110Updated 2 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆193Updated last month
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆91Updated 2 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆145Updated 3 years ago
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆130Updated last year
• romanhaa / Cerebro
  Visualization of scRNA-seq data.
  ☆99Updated 2 years ago