Alternatives and similar repositories for mito-genotyping

Users that are interested in mito-genotyping are comparing it to the libraries listed below

• caleblareau / mitoblacklist
  Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome
  ☆20Updated 3 years ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆40Updated 3 years ago
• single-cell-genetics / MQuad
  Tool for modelling of mitochondrial heteroplasmy
  ☆18Updated 11 months ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆58Updated last month
• 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…
  ☆39Updated 2 years ago
• Mayrlab / scUTRquant
  Bioinformatics pipeline for single-cell 3' UTR isoform quantification
  ☆22Updated 7 months ago
• huangyh09 / brie
  BRIE: Bayesian Regression for Isoform Estimate in Single Cells
  ☆42Updated last year
• raphael-group / chisel
  CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links
  ☆40Updated 7 months ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• HorvathLab / NGS
  Next-Gen Sequencing tools from the Horvath Lab
  ☆44Updated this week
• chung-lab / SCAFE
  Single Cell Analysis of Five'Ends
  ☆50Updated last year
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆52Updated 4 years ago
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆40Updated last week
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆43Updated 4 years ago
• wbaopaul / scATAC-pro
  A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
  ☆76Updated 4 months ago
• YosefLab / ImpulseDE2
  ☆38Updated 2 years ago
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆45Updated last year
• jon-xu / scSplit
  Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples withi…
  ☆41Updated 2 years ago
• aryeelab / hichipper
  A preprocessing and QC pipeline for HiChIP data
  ☆39Updated 3 years ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆30Updated 3 years ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆59Updated 4 years ago
• gqi / DAESC
  ☆11Updated last year
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆70Updated 6 months ago
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆27Updated 6 months ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• mcvickerlab / varCA
  Use an ensemble of variant callers to call variants from ATAC-seq data
  ☆23Updated last month
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆51Updated 2 years ago
• r3fang / snATAC
  <<------ Use SnapATAC!!
  ☆25Updated 6 years ago