Alternatives and similar repositories for vsn-pipelines

Users that are interested in vsn-pipelines are comparing it to the libraries listed below

• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆87Updated 8 months ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆113Updated 2 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆135Updated 5 months ago
• rpolicastro / scProportionTest
  ☆74Updated 2 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆96Updated 5 years ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 5 years ago
• chung-lab / SCAFE
  Single Cell Analysis of Five'Ends
  ☆50Updated last year
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 6 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated last month
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆65Updated 2 years ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆58Updated 4 years ago
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• cellgeni / batchbench
  ☆46Updated 3 years ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆103Updated 3 weeks ago
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆81Updated 3 years ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated 2 years ago
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆94Updated 2 years ago
• lhe17 / nebula
  ☆45Updated last month
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆80Updated 11 months ago
• MarioniLab / DropletUtils
  Clone of the Bioconductor repository for the DropletUtils package.
  ☆64Updated 4 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆98Updated 4 years ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆94Updated 7 months ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆95Updated 3 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆109Updated 11 months ago
• PierreBSC / Viral-Track
  ☆62Updated 5 years ago
• jon-xu / scSplit
  Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples withi…
  ☆41Updated 2 years ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago