Last updated: 2023-05-11

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Knit directory: cTWAS_analysis/

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To understand how distance affects FUSION model performance, I sampled 10% CpGs on each chromosome and extended to +/- 3kb, 100kb, 500kb. Then I ran FUSION with heritability cutoff 0.01. The plots from left to right are 3kb, 100kb, 500kb. Enet and top1 have similar rsq. Wholeblood and Prostate models are best at 3kb, lung model is best at 100kb

Fusion model of WholeBlood DNA methylation (smaple size 47).

Version Author Date
2e1c3dc sq-96 2023-05-09
353f1ce sq-96 2023-04-20
fab0798 sq-96 2023-04-20

Fusion model of Prostate DNA methylation (smaple size 123).

Version Author Date
2e1c3dc sq-96 2023-05-09

Fusion model of Lung DNA methylation (smaple size 223).

Version Author Date
2e1c3dc sq-96 2023-05-09

Histograms

Version Author Date
07483d6 sq-96 2023-05-11 

sessionInfo()
R version 4.1.0 (2021-05-18)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)

Matrix products: default
BLAS/LAPACK: /software/openblas-0.3.13-el7-x86_64/lib/libopenblas_haswellp-r0.3.13.so

locale:
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 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] workflowr_1.7.0

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