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SpectralTAD

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SpectralTAD: Hierarchical TAD detection using spectral clustering

v1.28.0 · software · MIT + file LICENSE
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Release Lineage

Entered 3.9 · May 3, 2019

Current · Requires R 4.6

1.0 In 15 of 49 releases 3.23

Description

SpectralTAD is an R package designed to identify Topologically Associated Domains (TADs) from Hi-C contact matrices. It uses a modified version of spectral clustering that uses a sliding window to quickly detect TADs. The function works on a range of different formats of contact matrices and returns a bed file of TAD coordinates. The method does not require users to adjust any parameters to work and gives them control over the number of hierarchical levels to be returned.

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Topics

Software
Software › Technology › Sequencing › HiC
Software › Technology › Sequencing
Software › StatisticalMethod › FeatureExtraction
Software › StatisticalMethod › Clustering

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