Correction to: SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clu
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CORRECTION
Open Access
Correction to: SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering Kellen G. Cresswell†, John C. Stansfield and Mikhail G. Dozmorov*† The original article can be found online at https://doi.org/10.1186/ s12859-020-03652-w. * Correspondence: mikhail. [email protected] † Kellen G. Cresswell and Mikhail G. Dozmorov contributed equally to this work. Department of Biostatistics, Virginia Commonwealth University, Richmond, VA, USA
Correction to: BMC Bioinformatics 21, 319 (2020) https://doi.org/10.1186/s12859-020-03652-w Following publication of the original article [1], the authors identified misformatted equations in the published article. The correctly formatted equations are given below. 1. Calculating the normalized symmetric Laplacian: 1 1 L ¼ D − 2 CD − 2
2. Solve the generalized eigenvalue problem: L V ¼ λV 3. The result is a matrix of eigenvectors V wk , where w is the window size, and k is the number of eigenvectors used, and a vector of eigenvalues where each entry λi corresponds to the ith eigenvalue of the normalized Laplacian L . 4. Normalize rows and columns to sum to 1: V i: c V i: ¼ ‖V i: ‖ 5. Find the mean silhouette score over all possible numbers of clusters m and organize into a vector of means:
© The Author(s). 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
Cresswell et al. BMC Bioinformatics
sm¼
(2020) 21:373
Pm
i¼1 si
m
6. Find the value of m which maximizes sm The original article has been updated.
Reference 1. Cresswell, et al. SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering. BMC Bioinformatics. 2020;21:319. https://doi.org/10.1186/s12859-020-03652-w.
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