Alternatives and similar repositories for scLink:

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

• theislab / hadge
  Comprehensive pipeline for donor demultiplexing in single cell
  ☆24Updated 10 months ago
• PoolLab / generecovery
  ☆29Updated 2 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆36Updated last month
• csoneson / rna_velocity_quant
  Evaluation of the effect of quantification choices on RNA velocity estimates
  ☆27Updated 3 years ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆41Updated last year
• shenorrLabTRDF / cellAlign
  ☆40Updated 4 years ago
• jgamache014 / snRNA-seq-workflow
  Human brain, >200,000 nuclei
  ☆24Updated 3 years ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆27Updated 3 years ago
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆17Updated 3 years ago
• satijalab / azimuth-references
  ☆22Updated 5 months ago
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆56Updated last year
• HelenaLC / muscat-comparison
  ☆12Updated 10 months ago
• GregorySchwartz / tooManyCellsR
  An R wrapper for too-many-cells, for clustering single cells and analyzing cell clade relationships with colorful visualizations.
  ☆25Updated 5 years ago
• crazyhottommy / scCustomize
  Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆16Updated 3 years ago
• crazyhottommy / scATACutils
  R/Bioconductor package for working with 10x scATACseq data
  ☆39Updated last year
• dibbelab / gficf
  An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization
  ☆15Updated 2 years ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆32Updated 3 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆50Updated last year
• oganm / homologene
  An r package that works as a wrapper to homologene
  ☆44Updated last year
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆25Updated last year
• jacobhepkema / scover
  scover
  ☆23Updated last year
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆21Updated last year
• cansysbio / ConsensusTME
  ConsensusTME Gene Sets and R Script
  ☆39Updated 10 months ago
• Vivianstats / scINSIGHT
  Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data
  ☆21Updated last year
• ambrosejcarr / seqc
  Single-Cell Sequencing Quality Control and Processing Software
  ☆30Updated 5 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆31Updated last week
• JinmiaoChenLab / FastIntegration
  FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
  ☆23Updated 5 months ago
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆22Updated 6 years ago
• greenelab / miQC
  Flexible, probablistic metrics for quality control of scRNA-seq data
  ☆20Updated 2 years ago
• KCCG / rageseq
  RAGE-seq scripts
  ☆18Updated 3 years ago