Alternatives and similar repositories for tadtool

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

• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆50Updated 2 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆32Updated 2 years ago
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆36Updated 10 years ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 6 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆67Updated 6 years ago
• dixonlab / hic_breakfinder
  ☆37Updated 6 years ago
• zyndagj / BSMAPz
  Updated and optimized fork of BSMAP
  ☆23Updated 4 years ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆59Updated 2 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 10 years ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆26Updated 7 months ago
• smithlabcode / methpipe
  A pipeline for analyzing DNA methylation data from bisulfite sequencing.
  ☆70Updated 3 years ago
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆44Updated 3 months ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• zd1 / telseq
  A software for calculating telomere length
  ☆72Updated 7 years ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆44Updated 3 years ago
• YaoLab-Bioinfo / shinyChromosome
  an R/Shiny application for interactive creation of non-circular plots of whole genomes
  ☆45Updated 5 months ago
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆28Updated last year
• ENCODE-DCC / wgbs-pipeline
  ENCODE whole-genome bisulfite sequencing (WGBS) pipeline
  ☆32Updated 3 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• XiaoTaoWang / HiCPeaks
  A Python implementation for BH-FDR and HiCCUPS
  ☆52Updated 6 months ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 3 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆44Updated this week
• XiaoTaoWang / domaincaller
  A Python implementation of the original DI domain caller
  ☆12Updated 5 years ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆52Updated last year
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆41Updated 3 years ago
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆113Updated 4 years ago
• huishenlab / biscuit
  BISulfite-seq CUI Toolkit
  ☆25Updated last month