Alternatives and similar repositories for SSrGE:

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

• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆43Updated last year
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆43Updated 4 years ago
• nghiavtr / SCmut
  ☆31Updated 5 years ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆47Updated 3 years ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆61Updated 2 years ago
• adamh-broad / single_cell_intestine
  R code for single-cell analysis of intestinal epithelial cells
  ☆21Updated 7 years ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆53Updated 4 years ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 4 years ago
• jdekanter / CHETAH
  scRNA-seq cell type identification
  ☆44Updated 5 years ago
• wzthu / esATAC
  Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis
  ☆23Updated 2 years ago
• McGranahanLab / TcellExTRECT
  ☆47Updated last month
• WeiqiangZhou / BIRD
  Big data Regression for predicting DNase I hypersensitivity
  ☆30Updated 6 months ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆43Updated 3 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆32Updated 2 years ago
• kundajelab / ataqc
  ☆16Updated 6 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆74Updated last week
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆50Updated last year
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆28Updated 2 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆38Updated 2 years ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆30Updated 2 years ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆39Updated 3 years ago
• GIS-SP-Group / RCA
  R package for robust clustering of single cell RNA sequencing data
  ☆38Updated last year
• shendurelab / single-cell-ko-screens
  Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…
  ☆26Updated 3 years ago
• elimereu / matchSCore2
  ☆53Updated 4 years ago
• ParkerLab / bioinf545
  ATAC-seq lab for BIOINF545
  ☆25Updated 2 weeks ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆37Updated 5 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…
  ☆42Updated 2 years 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
• r3fang / snATAC
  <<------ Use SnapATAC!!
  ☆25Updated 5 years ago