Main logo
?
tutorial arrow
×
Submit new tools
Share tools covering the current topic. Provide easy-to-follow guidelines to improve their usability.
Share new tools with the community
Sign up for free to promote the availability of bioinformatics tools

Data interpretation

G T A T C G C T A
WashU…
Web

WashU Epigenome Browser

A genome browser focusing on the human epigenome. The Browser is web-based and…

A genome browser focusing on the human epigenome. The Browser is web-based and it extends the seminal concept invented by the UCSC Cancer Genomics Browser to support large, sequencing-based datasets.…

G T A T C G C T A
HiGlass
Desktop

HiGlass

Displays and compares large matrices within a web page. HiGlass is a tool for…

Displays and compares large matrices within a web page. HiGlass is a tool for exploring large genomic data sets. It strives to create a seamless interface for zooming and exploration of massive 2D…

G T A T C G C T A
QuIN
Web
Desktop

QuIN Query tool for Interaction Networks

A web-based application for visualizing, annotating, and querying chromatin…

A web-based application for visualizing, annotating, and querying chromatin interactions derived from technologies such as ChIA-PET or HiC. QuIN enables: 1) building and visualizing chromatin…

G T A T C G C T A
3DIV
Dataset

3DIV 3D Interaction Viewer and Database

Gathers a list of long-range chromatin interaction partners of any queried…

Gathers a list of long-range chromatin interaction partners of any queried locus. 3DIV allows exploration of long-range chromatin interaction patterns surrounding the target of interest and…

G T A T C G C T A
HiPiler
Desktop

HiPiler

Enables the exploration and visualization of large genome interaction matrices…

Enables the exploration and visualization of large genome interaction matrices based on many small regions-of-interest (ROIs) through interactive small multiples. HiPiler is an interactive…

G T A T C G C T A
HiCExplorer
Desktop

HiCExplorer

Simplifies the Hi-C data pre-processing, contact matrix transformation, and…

Simplifies the Hi-C data pre-processing, contact matrix transformation, and topologically associating domain (TAD) calling into a few easy steps. HiCExplorer is a tool-suite that can be used with…

G T A T C G C T A
Juicebox
Desktop

Juicebox

Explores Hi-C and other contact map data. Juicebox allows users to zoom in and…

Explores Hi-C and other contact map data. Juicebox allows users to zoom in and out of Hi-C maps interactively. It integrates many technologies developed for the Integrative Genomics Viewer with a…

G T A T C G C T A
HiCPlotter
Desktop

HiCPlotter

An easy-to-use open-source visualization tool to facilitate juxtaposition of…

An easy-to-use open-source visualization tool to facilitate juxtaposition of Hi-C matrices with diverse genomic assay outputs, as well as to compare interaction matrices between various conditions.…

G T A T C G C T A
HiBrowse
Web

HiBrowse

A statistical web toolkit for analyzing, interpreting and visualizing…

A statistical web toolkit for analyzing, interpreting and visualizing genome-wide chromosome conformation capture data, such as Hi-C, TCC, GCC and similar.

G T A T C G C T A
GenomicInteract…
Desktop

GenomicInteractions

An R/Bioconductor package for the manipulation, annotation and visualisation of…

An R/Bioconductor package for the manipulation, annotation and visualisation of various types of chromatin interaction data, e.g. Hi-C, ChIA-PET. GenomicInteractions allows the easy annotation and…

G T A T C G C T A
Sushi.R
Desktop

Sushi.R

An R/Bioconductor package that allows flexible integration of genomic…

An R/Bioconductor package that allows flexible integration of genomic visualizations into highly customizable, publication-ready, multi-panel figures from common genomic data formats including…

G T A T C G C T A
HiView
Web

HiView

Leverages Hi-C results for the interpretation of Genome-wide association…

Leverages Hi-C results for the interpretation of Genome-wide association studies (GWAS) variants. HiView is able to display Hi-C data and statistical evidence for chromatin interactions in genomic…

G T A T C G C T A
HIPPIE
Desktop
G T A T C G C T A
CytoHiC
Desktop

CytoHiC

A Cytoscape plugin, which allow users to view and compare spatial maps of…

A Cytoscape plugin, which allow users to view and compare spatial maps of genomic landmarks, based on normalized Hi-C datasets. CytoHiC was developed to support intuitive visual comparison of Hi-C…

G T A T C G C T A
NuChart
Desktop

NuChart

An R Package to Study Gene Spatial Neighbourhoods with Multi-Omics Annotations.

An R Package to Study Gene Spatial Neighbourhoods with Multi-Omics Annotations.

G T A T C G C T A
HiC-inspector
Desktop

HiC-inspector

A bioinformatics pipeline for the automated analysis of data generated by…

A bioinformatics pipeline for the automated analysis of data generated by high-throughput chromatin conformation capture (HiC). The analysis workflow comprises steps of data formatting, genome…

G T A T C G C T A
GeSICA
Web

GeSICA Genome Segmentation from Intra Chromosomal Associations

Allows to explore genome organization. GeSICA calculates a simple logged ratio…

Allows to explore genome organization. GeSICA calculates a simple logged ratio to efficiently segment the human genome into regions with two distinct states that correspond to rich and poor…

Information

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.