Alternatives and similar repositories for gcMapExplorer

Users that are interested in gcMapExplorer 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
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆45Updated 3 years ago
• ISUgenomics / SequelTools
  new repo
  ☆28Updated 4 years ago
• nanoporetech / Pore-C-Snakemake
  ☆35Updated 2 years ago
• multiz / multiz
  DNA multiple sequence aligner, official version from Penn State's Miller Lab
  ☆36Updated 6 years ago
• ksahlin / ultra
  Long-read splice alignment with high accuracy
  ☆64Updated last year
• ulelab / ultraplex
  Ultra-fast 5' and 3' demultiplexer
  ☆28Updated last year
• agalitsyna / avTAD
  Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).
  ☆10Updated 4 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆28Updated 2 years ago
• Gaius-Augustus / MakeHub
  Fully automated generation of UCSC assembly hubs
  ☆35Updated 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
• vierstralab / genome-tools
  Processing and plotting tools for genomics data
  ☆22Updated last week
• LappalainenLab / lorals
  ☆38Updated 2 years ago
• koszullab / hicstuff
  Simple library/pipeline to generate and handle Hi-C data.
  ☆39Updated last year
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 10 months ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆18Updated 4 months ago
• harvardinformatics / NGmerge
  Merging paired-end reads and removing adapters
  ☆30Updated 5 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated last year
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆56Updated last year
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated 2 years ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆99Updated 2 months ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• ucdavis-bioinformatics / proc10xG
  processing 10x genomics reads
  ☆27Updated 6 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆58Updated last year
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• paulsengroup / hictk
  Blazing fast toolkit to work with .hic and .cool files
  ☆42Updated last week
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆65Updated 3 weeks ago
• srbehera / DRAGEN_Analysis
  ☆38Updated last year
• kingsfordgroup / armatus
  ☆29Updated 9 months ago