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
  ☆86Updated 6 years ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆155Updated 2 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆185Updated last year
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆192Updated 2 months ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆95Updated 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.
  ☆105Updated 3 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆206Updated last year
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆195Updated 2 years ago
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆75Updated 7 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• rpolicastro / scProportionTest
  ☆74Updated 2 years ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 7 years ago
• fl-yu / CUT-RUNTools-2.0
  CUT&RUN and CUT&Tag data processing and analysis
  ☆113Updated 10 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated last year
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆185Updated this week
• JiekaiLab / scTE
  ☆114Updated last year
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆120Updated 3 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆140Updated 4 years ago
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆132Updated 2 years ago
• 10XGenomics / vartrix
  Single-Cell Genotyping Tool
  ☆215Updated 2 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆199Updated last week
• nsalomonis / altanalyze
  AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-…
  ☆106Updated 3 years ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆119Updated 3 years ago
• farrellja / URD
  URD - Reconstruction of Branching Developmental Trajectories
  ☆126Updated 4 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆109Updated 11 months ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆65Updated 2 years ago
• maximilianh / cellBrowser
  main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datase…
  ☆113Updated 2 years ago
• 10XGenomics / loupeR
  Convert Seurat objects to 10x Genomics Loupe files.
  ☆147Updated 6 months ago