Alternatives and similar repositories for SCope

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

• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆80Updated 2 years ago
• AllonKleinLab / SPRING
  ☆69Updated 7 years ago
• PierreBSC / Viral-Track
  ☆63Updated 5 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆95Updated 3 years ago
• 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
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆96Updated 5 years ago
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆42Updated 5 years ago
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆57Updated 2 years ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆119Updated 3 years ago
• AllonKleinLab / SPRING_dev
  ☆71Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆110Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆86Updated 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
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 7 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆33Updated 2 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
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated last month
• CostaLab / reg-gen
  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
  ☆111Updated 2 months ago
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• deweylab / CellO
  CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
  ☆68Updated 2 years ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆65Updated 2 years ago
• GfellerLab / EPIC
  Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.
  ☆84Updated 2 years ago
• saezlab / transcriptutorial
  This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
  ☆56Updated 2 years ago
• MarioniLab / DropletUtils
  Clone of the Bioconductor repository for the DropletUtils package.
  ☆63Updated 5 months ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆81Updated 3 weeks ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆87Updated 9 months ago