Alternatives and similar repositories for CALDER:

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

• scoutzxb / CscoreTool
  ☆20Updated 4 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆40Updated 2 years ago
• dixonlab / hic_breakfinder
  ☆36Updated 5 years ago
• zhongmicai / Hic_tools_collection
  ☆11Updated 5 years ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆23Updated 10 months ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆37Updated 3 years ago
• shawnzhangyx / cvdc_scripts
  scripts for analyzing the CVDC data.
  ☆17Updated 5 years ago
• Tian-Dechao / diffDomain
  DiffDomain is a statistically sound method for detecting differential TADs between conditions
  ☆16Updated 4 months ago
• shizhuoxing / scISA-Tools
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆23Updated 7 months ago
• TaoYang-dev / hicrep
  R package to evaluate the reproducibility of Hi-C data
  ☆26Updated last year
• XiaoTaoWang / domaincaller
  A Python implementation of the original DI domain caller
  ☆13Updated 4 years ago
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆20Updated last year
• 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 10 months ago
• henssenlab / TreeShapedRearrangements
  Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)
  ☆15Updated 4 years ago
• kundajelab / ataqc
  ☆17Updated 6 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 5 years ago
• ay-lab / FitHiChIP
  Statistically Significant loops from HiChIP data
  ☆40Updated 10 months ago
• CSOgroup / CALDER2
  CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…
  ☆18Updated last year
• wanqingshao / TE_expression_in_scRNAseq
  ☆17Updated 4 years ago
• ZhaiLab-SUSTech / snuupy
  single-nucleus nanopore reads processing pipeline
  ☆15Updated last year
• GuoliangLi-HZAU / ChIA-PET_Tool_V3
  ChIA-PET, HiChIP, PLAC-Seq data analysis, with linker detection, linker filter, or restriction process for HiChIP, mapping, call cluster …
  ☆17Updated 7 months ago
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆23Updated 2 years ago
• LappalainenLab / lorals_paper_code
  ☆24Updated 2 years ago
• yycunc / FIREcaller
  FIREcaller: an R package for detecting frequently interacting re-gions from Hi-C data
  ☆12Updated 2 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated 2 months ago
• anlin00007 / OnTAD
  An Optimized Nested TAD caller for Hi-C data
  ☆20Updated 3 years ago
• bodegalab / irescue
  Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq
  ☆16Updated 3 weeks ago
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago