TADtool specifications


Unique identifier OMICS_13239
Name TADtool
Alternative name Topologically Associating Domains tool
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Square Hi-C Matrix, number of regions into Hi-C, region of the Hi-C matrix to display in plot
Input format NPY, BED3
Output data Hi-C plot with bars indicating the currently called TADs, a line plot with the insulation or directionality index at the current window size, a heatmap with the insulation or directionality index for all specified window sizes
Operating system Unix/Linux, Mac OS
Programming languages Python
License MIT License
Computer skills Advanced
Stability Stable
Source code URL https://codeload.github.com/vaquerizaslab/tadtool/zip/master
Maintained Yes


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  • person_outline Kai Kruse <>

Publication for Topologically Associating Domains tool

TADtool institution(s)
Max Planck Institute for Molecular Biomedicine, Münster, Germany
TADtool funding source(s)
EpiGeneSys NoE; ZENCODE-ITN; Deutsche Forschungsgemeinschaft Cells-in-Motion Cluster of Excellence (EXC 1003–CiM); University of Münster and the Max Planck Society; Fellowship from the graduate school International Max Planck Research School–Molecular Biomedicine, Münster, Germany; European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 643062

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