Alternatives and similar repositories for HiCBrowser

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

• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆28Updated last year
• YaoLab-Bioinfo / shinyChromosome
  an R/Shiny application for interactive creation of non-circular plots of whole genomes
  ☆45Updated 4 months ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆48Updated 2 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 11 months ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• s-andrews / BamQC
  Mapped QC analysis program
  ☆44Updated 7 years ago
• zd1 / telseq
  A software for calculating telomere length
  ☆71Updated 6 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆41Updated this week
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆21Updated 2 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆32Updated 2 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆97Updated last year
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆14Updated 2 years ago
• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆45Updated last week
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years 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
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆34Updated 3 years ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆35Updated 4 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆43Updated last week
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆22Updated 2 years ago
• PapenfussLab / sv_benchmark
  Comprehensive benchmark of structural variant callers
  ☆46Updated 4 years ago
• nf-core / lncpipe
  UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets
  ☆34Updated 5 months ago
• stephenfloor / extract-transcript-regions
  For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…
  ☆36Updated 2 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆51Updated 4 years ago
• ben-laufer / CpG_Me
  A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to …
  ☆23Updated 3 years ago
• fansalon / TEspeX
  TEspeX - pipeline for Transposable Elements expression quantification
  ☆21Updated 2 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆63Updated 11 months ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆51Updated last year