Alternatives and similar repositories for HiCBrowser

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

• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆46Updated 2 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 9 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆29Updated 9 months ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆49Updated 2 years ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆35Updated 3 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆61Updated 9 months ago
• YaoLab-Bioinfo / shinyChromosome
  an R/Shiny application for interactive creation of non-circular plots of whole genomes
  ☆45Updated 2 months ago
• HenrikBengtsson / TopDom
  R package: TopDom - An efficient and Deterministic Method for identifying Topological Domains in Genomes
  ☆21Updated 2 years ago
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆22Updated last year
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆14Updated last year
• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated 2 years 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…
  ☆35Updated 2 years ago
• PapenfussLab / sv_benchmark
  Comprehensive benchmark of structural variant callers
  ☆46Updated 4 years ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆44Updated last week
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆62Updated 2 months ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 9 years ago
• eblancoga / seqcode
  Suite of command-line software for high-performance graphical analysis of ChIP-seq/RNA-seq/ATAC-seq data
  ☆19Updated 3 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆42Updated last week
• zd1 / telseq
  A software for calculating telomere length
  ☆70Updated 6 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 9 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆44Updated 2 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 7 years ago
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆73Updated 3 years ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆49Updated last year
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆60Updated last month
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated 2 years ago