Alternatives and similar repositories for scanpy-in-R

Users that are interested in scanpy-in-R are comparing it to the libraries listed below

• jdime / scRNAseq_cell_cluster_labeling
  Scripts to run and benchmark scRNA-seq cell cluster labeling methods
  ☆48Updated 5 years ago
• Oshlack / speckle
  R package for specialised analysis of single cell data
  ☆40Updated 3 years ago
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆57Updated last year
• Neurosurgery-Brain-Tumor-Center-DiazLab / CONICS
  CONICS: COpy-Number analysis In single-Cell RNA-Sequencing
  ☆75Updated 2 years ago
• lhe17 / nebula
  ☆45Updated last month
• elimereu / matchSCore2
  ☆56Updated 5 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated last month
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆40Updated 4 years ago
• hemberg-lab / scfind
  ☆43Updated 2 years ago
• MSingerLab / COMETSC
  COMET Single-Cell Marker Detection tool
  ☆31Updated 3 years ago
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆46Updated 2 years ago
• lcmmichielsen / scHPL
  ☆37Updated 10 months ago
• vanheeringen-lab / scepia
  Single Cell Epigenome-based Inference of Activity
  ☆19Updated 2 years ago
• lanagarmire / SSrGE
  ☆34Updated 6 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
• plger / pipeComp
  A R framework for pipeline benchmarking, with application to single-cell RNAseq
  ☆42Updated 4 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
• shenorrLabTRDF / cellAlign
  ☆43Updated 5 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆44Updated 3 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆18Updated 4 years ago
• PoolLab / generecovery
  ☆29Updated 2 years ago
• klarman-cell-observatory / scSVA
  Single-cell Scalable Visualization and Analytics
  ☆26Updated 6 years ago
• niaid / dsb
  Normalize CITEseq Data
  ☆66Updated 2 months ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• kharchenkolab / cacoa
  Single-cell Case Control Analysis
  ☆52Updated last month
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆95Updated 7 months ago