Alternatives and similar repositories for mgatk:

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

• KChen-lab / Monopogen
  SNV calling from single cell sequencing
  ☆94Updated 4 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆122Updated 9 months ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆80Updated 8 months ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 4 months ago
• reskejak / ATAC-seq
  Basic workflow for ATAC-seq analysis
  ☆74Updated last year
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆51Updated 3 years ago
• TrinityCTAT / Trinity_CTAT
  ☆116Updated last year
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆77Updated 2 years ago
• andygxzeng / BoneMarrowMap
  A single cell RNA-seq reference map of human hematopoietic development in the bone marrow, with balanced representation of hematopoietic …
  ☆36Updated 4 months ago
• epi2me-labs / wf-single-cell
  ☆83Updated last week
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆67Updated 2 months ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆107Updated 2 years ago
• 10XGenomics / subset-bam
  ☆72Updated last year
• MarioniLab / DropletUtils
  Clone of the Bioconductor repository for the DropletUtils package.
  ☆57Updated 3 months ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 4 years ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆169Updated 8 months ago
• QuKunLab / ATAC-pipe
  Analysis pipeline for ATAC-seq Data
  ☆60Updated 3 years ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• chung-lab / SCAFE
  Single Cell Analysis of Five'Ends
  ☆48Updated 11 months ago
• akdess / CaSpER
  ☆83Updated 3 years ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆55Updated last week
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆74Updated this week
• noush-joglekar / scisorseqr
  scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two cond…
  ☆37Updated 2 years ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆61Updated last year
• 3UTR / DaPars2
  Dynamics analysis of Alternative PolyAdenylation from RNA-seq
  ☆56Updated last year
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆142Updated 8 months ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …
  ☆63Updated last week
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆67Updated 5 years ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆92Updated 4 years ago