Alternatives and similar repositories for single_cell_toolkit:

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

• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 4 years ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆42Updated last year
• andygxzeng / BoneMarrowMap
  A single cell RNA-seq reference map of human hematopoietic development in the bone marrow, with balanced representation of hematopoietic …
  ☆29Updated 2 months ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆53Updated 3 years ago
• 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
• dozmorovlab / excluderanges
  Genomic coordinates of problematic genomic regions as GRanges
  ☆32Updated last month
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• 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
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 3 months ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆31Updated 3 years ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆54Updated this week
• aryarm / varCA
  Use an ensemble of variant callers to call variants from ATAC-seq data
  ☆23Updated 2 years ago
• yjzhang / split-seq-pipeline
  ☆20Updated 4 years ago
• theislab / hadge
  Comprehensive pipeline for donor demultiplexing in single cell
  ☆24Updated 7 months ago
• UPSUTER / GEMLI
  ☆29Updated 4 months ago
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆43Updated 3 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆32Updated 6 years ago
• UcarLab / AMULET
  A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.
  ☆30Updated 2 years ago
• lhe17 / nebula
  ☆35Updated 10 months ago
• GWW / scsnv
  scSNV Mapping tool for 10X Single Cell Data
  ☆23Updated 9 months ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆38Updated 3 years ago
• mbassalbioinformatics / CnRAP
  Analytical pipeline developed to anlayze Cut and Run data. Inspired by both Henikoff (SEACR) and Orkin (Cut&RunTools) lab pipelines.
  ☆18Updated 3 years ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆60Updated 2 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆66Updated last week
• broadinstitute / 2019_scWorkshop
  Repo for Physalia course Analysis of Single Cell RNA-Seq data
  ☆31Updated 5 years ago
• lanagarmire / SSrGE
  ☆33Updated 5 years ago
• elimereu / matchSCore2
  ☆53Updated 4 years ago
• Mayrlab / scUTRquant
  Bioinformatics pipeline for single-cell 3' UTR isoform quantification
  ☆18Updated 2 months ago
• 10XGenomics / subset-bam
  ☆72Updated last year
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆50Updated last year