Alternatives and similar repositories for footprints:

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

• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• wenweixiong / MARVEL
  ☆44Updated 5 months 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
• wzthu / esATAC
  Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis
  ☆23Updated 2 years ago
• UPSUTER / GEMLI
  ☆29Updated last week
• lkmklsmn / MitoTrace
  ☆15Updated 7 months ago
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆28Updated 2 years ago
• cole-trapnell-lab / monocle2-rge-paper
  Scripts needed to generate the figures for the Monocle 2 paper (Qiu et al, 2017)
  ☆28Updated 4 years ago
• nghiavtr / SCmut
  ☆31Updated 5 years ago
• Morriseylab / scExtras
  ☆12Updated 6 months ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆42Updated last year
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆42Updated 11 months ago
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆43Updated 3 years ago
• molgenis / scRNA-seq
  ☆18Updated 10 months ago
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆25Updated 3 months ago
• LTLA / batchelor
  Clone of the Bioconductor repository for the batchelor package.
  ☆16Updated 6 months ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆50Updated last year
• jlaffy / infercna
  Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data
  ☆31Updated last year
• liulab-dfci / lisa2
  ☆29Updated 2 years ago
• shendurelab / mouse-atac
  Repo for website and other code for mouse sci-ATAC-seq project
  ☆28Updated 4 years ago
• YosefLab / ImpulseDE2
  ☆36Updated 2 years ago
• lhe17 / nebula
  ☆35Updated 10 months ago
• PoolLab / generecovery
  ☆29Updated last year
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆53Updated 3 years ago
• gxiaolab / scAllele
  ☆31Updated 9 months ago
• csoneson / rna_velocity_quant
  Evaluation of the effect of quantification choices on RNA velocity estimates
  ☆27Updated 3 years ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆61Updated 2 years ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆43Updated 3 years ago
• supatt-lab / SingCellaR
  an integrative analysis tool for analysing large-scale single cell RNA-sequencing data
  ☆33Updated last year
• CFeregrino / scWGCNA
  scWGCNA
  ☆56Updated 2 years ago