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
  ☆75Updated 2 years ago
• AllonKleinLab / SPRING
  ☆69Updated 7 years ago
• deweylab / CellO
  CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
  ☆65Updated 2 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆92Updated 3 years ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 3 months ago
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆58Updated 2 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-…
  ☆104Updated 3 years ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• AllonKleinLab / SPRING_dev
  ☆69Updated last year
• cole-trapnell-lab / cicero-release
  ☆58Updated 11 months ago
• JonathanShor / DoubletDetection
  Doublet detection in single-cell RNA-seq data.
  ☆92Updated 6 months ago
• PierreBSC / Viral-Track
  ☆61Updated 4 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆76Updated 5 months ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• broadinstitute / single_cell_portal_core
  Rails/Docker application for the Broad Institute's single cell RNA-seq data portal
  ☆68Updated this week
• 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
• romanhaa / Cerebro
  Visualization of scRNA-seq data.
  ☆99Updated 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
• timoast / sinto
  Tools for single-cell data processing
  ☆126Updated last year
• ggjlab / scMCA
  Mouse cell atlas
  ☆62Updated 5 years ago
• mhorlbeck / ScreenProcessing
  ☆64Updated last year
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆108Updated 6 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 6 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆74Updated 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.
  ☆103Updated 2 years ago
• miaozhun / DEsingle
  Homepage: https://miaozhun.github.io/DEsingle. Bioconductor page: https://bioconductor.org/packages/DEsingle.
  ☆31Updated 2 years ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• TrinityCTAT / Trinity_CTAT
  ☆117Updated last year
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 6 years ago