Description
A track showing segmental duplications as generated by sedef on the assembly: T2T-CHM13-v2.0
Column descriptions can be found here: columns.
Display Conventions and Configuration
This section describes track configuration controls, or any special display conventions such as the
meaning of different colors in your tracks.
The colours used for level of similary
segmentation standard:
| less than 90% similarity | Purple |
| 90 - 98% similarity | Light to dark gray |
| 98 - 99% similarity | Yellow |
| greater than 99% similarity | Orange |
Methods
Sedef was run with default parameters on a RepeatMasked genome assembly.
The resulting output (final.bed) was then converted into a browser friendly format (bed9 + extra fields).
Credits
References
M. R. Vollger et al., Segmental duplications and their variation in a complete
human genome. Science. 2022 April 1; eabj6965. DOI: 10.1126/science.abj6965
Numanagic I, Gökkaya AS, Zhang L, Berger B, Alkan C, Hach F.
Fast characterization of segmental duplications in genome assemblies.
Bioinformatics. 2018 Sep 1;34(17):i706-i714.
PMID: 30423092;
PMC: PMC6129265
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US Server