WM + SDust Track Settings
 
Genomic Intervals Masked by WindowMasker + SDust   (All Repeats tracks)

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Data last updated: 2018-08-10


p12 Note: Includes annotations on GRCh38.p12 patch sequences

Description

This track depicts masked sequence as determined by WindowMasker. The WindowMasker tool is included in the NCBI C++ toolkit. The source code for the entire toolkit is available from the NCBI FTP site.

Methods

To create this track, WindowMasker was run with the following parameters:

windowmasker -mk_counts true -input hg38.fa -output wm_counts
windowmasker -ustat wm_counts -sdust true -input hg38.fa -output repeats.bed
The repeats.bed (BED3) file was loaded into the "windowmaskerSdust" table for this track.

References

Morgulis A, Gertz EM, Schäffer AA, Agarwala R. WindowMasker: window-based masker for sequenced genomes. Bioinformatics. 2006 Jan 15;22(2):134-41. PMID: 16287941