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- CoGe
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Point Count:
X Axis Label
Y Axis Label
Z Axis Label
Welcome to the new SynMap3D Viewer!
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SynMap Navigation Instructions:
Histogram Navigation:
For more help, see the SynMap3D Wiki
- - Zoom: Scroll wheel
- - Rotate: Click & drag
- - Select points: Click
Histogram Navigation:
- - View log(value) limits and point count for each histogram bin: hover on bar
- - Display point subsets: Click and drag to select histogram region
- - Moving subset: Click and drag on brush selection
- - Clear subset: Click empty, unselected space on histogram
For more help, see the SynMap3D Wiki
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Synonymous Mutations (Ks) Histogram
Non-synonymous Mutations (Kn) Histogram
Kn/Ks Histogram
Controls
Color Options
Point Selection
Regenerate Analysis
Download Results
XY
XZ
YZ
Additional Controls
Color Options
Point Selection
No Point Selected
Regenerate Analysis
Download Results
The submitted analysis returned no results
This could be to reasons such as:- - Too distant comparison: distant species may not share three-way synteny.
- - Genome lacking information: sometimes genomes are loaded that lack the information needed to effectively perform the calculations.
Try re-running your analysis with different genomes. If you believe this message is in error, please contact CoGe support.
The submitted analysis has too many hits for the SynMap3D renderer!
Your raw results are still available for download:To visualize your data, please return to the wizard and adjust options to limit point count:
- - Limit by mutation value: adjust these options to only return points with Kn, Ks, or Kn/Ks values between user-designated cutoffs.
- - Limit by DBSCAN clustering: enabling this option will remove outlier (non-clustered) points. Options can be to increase/decrease stringency of cluster calling.
Welcome to SynMap3D!
This page allows you to compare synteny between three genomes in a 3d environment. A VR mode is available, for those who so desire.
See this article for detailed instructions. Or at any time you can click the "Need help?" link in the upper right of this page.
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