1,555
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to searchBar Harbor Statistical Genetics Workshop (view source)
Revision as of 11:31, 22 July 2010
, 11:31, 22 July 2010→Plotting Regional Association Results
=== Plotting Regional Association Results ===
=== Plotting Regional Association Results ===
The ability to display association study results in a visual manner can also be extremely useful.
The ability to display association study results in a visual manner can also be extremely useful. There are now several automated tools that facilitate the process of generating high quality visual displays of association study results and regional linkage disequilibrium patterns, including SNAP [http://www.broadinstitute.org/mpg/snap/], CandiSNPer [http://www2.hu-berlin.de/wikizbnutztier/software/CandiSNPer/] and LocusZoom [http://csg.sph.umich.edu/locuszoom/].
Here, we will use LocusZoom to generate displays of association study results.
To do this, you should:
# Go to the LocusZoom website at http://csg.sph.umich.edu/locuszoom/ and select '''Plot Using Your Data'''
# Upload your data (using the '''Browse ...''' button)
# Provide key descriptors in your data, including header information for:
## P-value column (should be PVALUE)
## Marker name column (should be SNP)
## Column delimiter (should be WhiteSpace)
# Select a region to plot (for example, you could request plots in the regions surrounding G6PC2, MTNR1B or GCK)
=== Questions to Consider ===
