Alternatives and similar repositories for CaSpER

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

• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆80Updated 3 years ago
• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆112Updated 11 months ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆45Updated 5 years ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆95Updated 5 years ago
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆75Updated 4 years ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆69Updated 5 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆79Updated 7 months ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆54Updated last year
• rpolicastro / scProportionTest
  ☆73Updated 2 years ago
• MarioniLab / DropletUtils
  Clone of the Bioconductor repository for the DropletUtils package.
  ☆62Updated last month
• TheHumphreysLab / plot1cell
  ☆115Updated last month
• databio / awesome-atac-analysis
  Links to ATAC-seq analysis tools
  ☆71Updated 4 years ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆62Updated 4 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆108Updated 9 months ago
• caleblareau / BuenColors
  R package of colors for the Buenrostro Lab
  ☆84Updated last year
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆93Updated 3 years ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆60Updated last month
• McGranahanLab / TcellExTRECT
  ☆47Updated 9 months ago
• bowmanr / scDNA_myeloid
  Processing scripts for single cell DNA sequencing on the Tapestri platform
  ☆24Updated 2 years ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆54Updated 4 years ago
• liulab-dfci / RIMA_pipeline
  ☆87Updated last month
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆64Updated 4 years ago
• ysuzukilab / Cibersortx
  Repository for Cibersortx
  ☆60Updated 4 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆51Updated 2 years ago
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆113Updated last month
• chung-lab / SCAFE
  Single Cell Analysis of Five'Ends
  ☆50Updated last year
• SGI-LungCancer / SingleCell
  Code repository for single cell RNA-seq
  ☆37Updated 5 years ago
• jcao89757 / SCINA
  SCINA: A Semi-Supervised Subtyping Algorithm of Single Cells and Bulk Samples
  ☆71Updated 3 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆71Updated 9 months ago
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆42Updated 4 years ago