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easyGWAS
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Brief Summary
Experiment Type:
Genome-wide Association Study
Species:
Helianthus annuus
Dataset:
wild Helianthus annuus, SNPs remapped to HA412
Phenotype:
Trichomes density center average (ID: ANN rm218P182)
Algorithm:
EMMAX
Parameters:
MAF:
0.05
SNP Encoding:
Additive
Transformation:
None
Manhattan Plots
QQ-Plots
SNP Annotations
Summary/Downloads
Manhattan Plots
Show GWAS Options (e.g. Multiple Hypothesis Correction Methods, Display Options)
Update multiple testing correction method
Bonferroni (FWER)
Storey & Tibishirani q-value (FDR)
Benjamini & Hochberg (FDR)
Benjamini, Hochberg & Yekutieli (FDR)
Update significance level α for correction
0.1
0.05
0.01
Show SNPs with a minor allele frequency less or equal than:
1%
5%
10%
20%
30%
40%
50%
Show top x% of all p-values (be careful: fast internet-connection required)
Top 5%
Top 10%
Top 20%
Top 30%
Top 40%
Top 50%
Display genes in zoomed Manhattan-plots
Use only unique SNPs for Bonferroni threshold:
Plot unique SNPs only (only keep one copy of identical SNPs):
Click on a SNP to access a
detailed SNP
view with additional annotations, LD plots and more!
Click on any position in the Manhattan plot, hold the mouse button and move the mouse to the right to
zoom
into a region of interest!
x
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SNP
-log(10)