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:
2. Solve the generalized eigenvalue problem:
3. The result is a matrix of eigenvectors \( {\overline{V}}_{w\times k} \), 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 \( \overline{L} \).
4. Normalize rows and columns to sum to 1:
5. Find the mean silhouette score over all possible numbers of clusters m and organize into a vector of means:
6. Find the value of m which maximizes \( {\overline{s}}_m \)
The original article has been updated.
Reference
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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Cresswell, K.G., Stansfield, J.C. & Dozmorov, M.G. Correction to: SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering. BMC Bioinformatics 21, 373 (2020). https://doi.org/10.1186/s12859-020-03710-3
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DOI: https://doi.org/10.1186/s12859-020-03710-3