lilab-bcb / cumulus

Related projects ⓘ

Alternatives and complementary repositories for cumulus

• lanagarmire / SSrGE
  ☆33Updated 5 years ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆30Updated last year
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆49Updated last year
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆43Updated 3 years ago
• lcmmichielsen / scHPL
  ☆34Updated 6 months ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆37Updated 2 years ago
• cboix / EPIMAP_ANALYSIS
  Epimap processing and analysis code repository
  ☆33Updated 2 years ago
• elimereu / matchSCore2
  ☆53Updated 3 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 last year
• broadinstitute / RNA_MUTECT_1.0-1
  ☆37Updated 4 years ago
• wenweixiong / MARVEL
  ☆40Updated 3 months ago
• liulab-dfci / RIMA_pipeline
  ☆73Updated 9 months ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆53Updated 3 years ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆26Updated 11 months ago
• broadinstitute / 2019_scWorkshop
  Repo for Physalia course Analysis of Single Cell RNA-Seq data
  ☆31Updated 5 years ago
• GreenleafLab / chromVARmotifs
  R package with motifs for use with chromVAR
  ☆25Updated 6 years ago
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆42Updated last year
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆38Updated last week
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆72Updated 2 months ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆59Updated 2 years ago
• pachterlab / kallisto-transcriptome-indices
  Reference transcriptome indices build from kallisto for popular organisms
  ☆41Updated 11 months ago
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆69Updated 3 years ago
• jdekanter / CHETAH
  scRNA-seq cell type identification
  ☆41Updated 5 years ago
• gillislab / MetaNeighbor
  A method to rapidly assess cell type identity using both functional and random gene sets
  ☆34Updated last year
• YeoLab / singlecell_pnm
  Code and figures accompanying the paper, "Single-cell alternative splicing analysis with Expedition reveals splicing dynamics during neu…
  ☆20Updated 7 years ago
• cole-trapnell-lab / cicero-release
  ☆55Updated 2 months ago
• nghiavtr / SCmut
  ☆31Updated 5 years ago
• UcarLab / AMULET
  A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.
  ☆29Updated last year
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆61Updated 6 months ago
• seasoncloud / Alleloscope
  Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…
  ☆29Updated last year