Alternatives and similar repositories for knowledgebase

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

• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆119Updated 3 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆184Updated 2 weeks ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆125Updated 9 months ago
• jokergoo / simplifyEnrichment
  Simplify functional enrichment results
  ☆122Updated last year
• andygxzeng / BoneMarrowMap
  A single cell RNA-seq reference map of human hematopoietic development in the bone marrow, with balanced representation of hematopoietic …
  ☆82Updated 8 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆199Updated 3 weeks ago
• MangiolaLaboratory / sccomp
  Bayesian mixed-effect model to test differences in cell type proportions from single-cell data, in R
  ☆119Updated last week
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆80Updated 2 years ago
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆207Updated 3 weeks ago
• wjawaid / enrichR
  An R interface to enrichR
  ☆93Updated 11 months ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆98Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆131Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆185Updated last year
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆156Updated 3 months ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆98Updated 2 years ago
• kevinblighe / E-MTAB-6141
  Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.
  ☆122Updated 5 years ago
• nf-core / scdownstream
  A single cell transcriptomics pipeline for QC, integration and making the data presentable
  ☆83Updated this week
• 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
• crazyhottommy / papers_with_data_to_mine
  published papers with a lot of data
  ☆74Updated 9 months ago
• GSEA-MSigDB / GSEA_R
  Updated implementation of the GSEA-P R application for modern R distributions
  ☆99Updated 4 years ago
• OSCA-source / OSCA
  The package wrapping the book, for deployment via the Bioconductor build system.
  ☆98Updated last year
• broadinstitute / 2020_scWorkshop
  Code and data repository for the 2020 physalia course on single cell RNA sequencing.
  ☆59Updated 5 years ago
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆216Updated last month
• 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
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆193Updated 2 months 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
• sib-swiss / single-cell-training
  SIB course on single cell transcriptomics by mostly using the Seurat pipeline
  ☆86Updated 2 weeks ago
• tidyomics / tidyomics
  Easily install and load packages from the tidyomics ecosystem
  ☆74Updated 3 months ago
• PierreBSC / Viral-Track
  ☆63Updated 5 years ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆65Updated last year