Alternatives and similar repositories for hic_breakfinder:

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

• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆40Updated 2 years ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆37Updated 3 years ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆23Updated 10 months ago
• LappalainenLab / lorals_paper_code
  ☆23Updated 2 years ago
• ma-compbio / Phylo-HMRF
  ☆16Updated 4 years ago
• ay-lab / HiCnv
  HiCnv is used to call copy number variations and breakpoints from Hi-C data
  ☆21Updated 11 months ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆38Updated 3 years ago
• cortes-ciriano-lab / ReConPlot
  ☆21Updated 2 months ago
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• zhongmicai / Hic_tools_collection
  ☆11Updated 5 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆32Updated 9 years ago
• shawnzhangyx / cvdc_scripts
  scripts for analyzing the CVDC data.
  ☆17Updated 5 years ago
• XiaoTaoWang / domaincaller
  A Python implementation of the original DI domain caller
  ☆13Updated 4 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆39Updated 2 months ago
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆21Updated last year
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆44Updated 2 years ago
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆61Updated last year
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆13Updated 11 months ago
• CSOgroup / CALDER
  ☆21Updated last year
• AndreasHeger / gat
  Genomic Association Tester
  ☆30Updated last year
• XiDsLab / TAGET
  ☆17Updated 2 years ago
• PulverCyril / craTEs
  Estimate the cis-regulatory activity of transposable element (TEs) subfamilies
  ☆10Updated last year
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆18Updated this week
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago
• christopher-vollmers / Mandalorion
  Pipeline to identify isoforms from full-length cDNA sequencing data
  ☆24Updated 9 months ago
• twlab / TEProf2Paper
  TEProf2 Pipeline used to find promoters and predict protein sequences from RNA-sequencing data
  ☆23Updated last year
• anlin00007 / OnTAD
  An Optimized Nested TAD caller for Hi-C data
  ☆20Updated 3 years ago
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆66Updated 5 years ago