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
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆49Updated 3 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆55Updated last year
• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆47Updated this week
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆100Updated last year
• zd1 / telseq
  A software for calculating telomere length
  ☆73Updated 7 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…
  ☆36Updated 2 years ago
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆35Updated 2 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆41Updated last week
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆52Updated 3 years ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• s-andrews / BamQC
  Mapped QC analysis program
  ☆44Updated 7 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 4 years ago
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆50Updated 11 months ago
• PapenfussLab / sv_benchmark
  Comprehensive benchmark of structural variant callers
  ☆48Updated 4 years ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 10 years ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆13Updated 2 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆54Updated last year
• smithlabcode / preseq
  Software for predicting library complexity and genome coverage in high-throughput sequencing.
  ☆92Updated 3 weeks ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆40Updated 4 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆34Updated 10 years ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 3 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• nf-core / lncpipe
  UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets
  ☆34Updated 9 months ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago