Alternatives and similar repositories for maegatk

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

• Teichlab / snp2cell
  cell type specific, trait-associated gene regulation
  ☆27Updated 5 months ago
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆30Updated 6 months ago
• UPSUTER / GEMLI
  ☆32Updated 7 months ago
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆26Updated 10 months ago
• gambalab / gficf
  An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization
  ☆18Updated 2 years ago
• gxiaolab / scAllele
  ☆38Updated 2 weeks ago
• WWXkenmo / ICAnet
  Independent Component Analysis decipher functional modules for better cell clustering and annotation
  ☆17Updated 3 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆33Updated 5 months ago
• wenweixiong / MARVEL
  ☆51Updated last year
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆41Updated 3 weeks ago
• MagpiePKU / EpiTrace
  Cell age determination by scATAC-seq and bulk-ATAC-seq
  ☆32Updated last year
• mardzix / bcd_nano_CUTnTag
  ☆12Updated last year
• GreenleafLab / ChrAccR
  Analyzing chromatin accessibility data in R
  ☆18Updated 2 years ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆29Updated this week
• jeongdo801 / scNOVA
  scNOVA : Single-Cell Nucleosome Occupancy and genetic Variation Analysis
  ☆11Updated 2 years ago
• aertslab / ScoMAP
  ScoMAP is an R package to spatially integrate single-cell omics data into virtual cells and infer enhancer-to-gene relationships.
  ☆27Updated 3 years ago
• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆35Updated 4 years ago
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆50Updated last year
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• kharchenkolab / cacoa
  Single-cell Case Control Analysis
  ☆52Updated last week
• veltenlab / mitoClone
  ☆12Updated 4 years ago
• navinlabcode / copykit
  Toolkit for single-cell copy number analysis
  ☆24Updated 2 months ago
• PoolLab / generecovery
  ☆29Updated 2 years ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆26Updated last year
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆37Updated last month
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated 8 months ago
• mainciburu / WAT3R
  Workflow for the Association of T-cell receptors from 3' single-cell RNA-seq (WAT3R)
  ☆21Updated 2 years ago
• Caochris / SCOTIA
  ☆20Updated 2 months ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 9 months ago