Alternatives and similar repositories for footprints

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

• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆47Updated 2 years ago
• cole-trapnell-lab / monocle2-rge-paper
  Scripts needed to generate the figures for the Monocle 2 paper (Qiu et al, 2017)
  ☆29Updated 5 years ago
• wenweixiong / MARVEL
  ☆51Updated last year
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 4 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆32Updated 7 months ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆43Updated 4 years ago
• wzthu / esATAC
  Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis
  ☆23Updated 3 years ago
• cole-trapnell-lab / pseudospace
  ☆12Updated 6 years ago
• lambdamoses / novoSpaRc
  Reconstruction of spatial context of gene expression with optimal transport
  ☆11Updated 6 years ago
• 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
• immunogenomics / scHLApers
  Code to run the scHLApers pipeline for personalized single-cell HLA quantification
  ☆17Updated last year
• shendurelab / mouse-atac
  Repo for website and other code for mouse sci-ATAC-seq project
  ☆28Updated 5 years ago
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆35Updated 3 years ago
• gxiaolab / scAllele
  ☆39Updated 2 months ago
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• Neurosurgery-Brain-Tumor-Center-DiazLab / CONICS
  CONICS: COpy-Number analysis In single-Cell RNA-Sequencing
  ☆75Updated 2 years ago
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆25Updated 2 years ago
• single-cell-genetics / singlecell_endodiff_paper
  Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression
  ☆15Updated last year
• prabhakarlab / RCAv2
  R package for robust clustering of single cell RNA sequencing data
  ☆36Updated last year
• 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…
  ☆31Updated 2 years ago
• tinglab / reCAT
  ☆20Updated 6 years ago
• kharchenkolab / cacoa
  Single-cell Case Control Analysis
  ☆52Updated 2 weeks ago
• neurorestore / DE-analysis
  ☆39Updated 4 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆43Updated 3 years ago
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆31Updated 2 years ago
• ggjlab / scHCL
  ☆47Updated 5 years ago
• bsml320 / scGWAS
  A method which leverages scRNA-seq data to achieve two goals: (1) to infer the cell types in which the disease-associated genes manifest …
  ☆26Updated 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…
  ☆57Updated 4 years ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 10 months ago