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SCAT  

Summary Based Conditional Association Test
View on CRAN: Click here


Download and install SCAT package within the R console
Install from CRAN:
install.packages("SCAT")

Install from Github:
library("remotes")
install_github("cran/SCAT")

Install by package version:
library("remotes")
install_version("SCAT", "0.5.0")



Attach the package and use:
library("SCAT")
Maintained by
Han Zhang
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2017-06-23
Latest Update: 2023-01-28
Description:
Conditional association test based on summary data from genome-wide association study GWAS. SCAT adjusts for heterogeneity in SNP coverage that exists in summary data if SNPs are not present in all of the participating studies of a GWAS meta-analysis. This commonly happens when different reference panels are used in participating studies for genotype imputation. This could happen when ones simply do not have data for some SNPs e.g. different array or imputated data is not available. Without properly adjusting for this kind of heterogeneity leads to inflated false positive rate. SCAT can also be used to conduct conventional conditional analysis when coverage heterogeneity is absent. For more details refer to Zhang et al. 2018 Brief Bioinform. 1961337-1343. doi 10.1093bibbbx072.
How to cite:
Han Zhang (2017). SCAT: Summary Based Conditional Association Test. R package version 0.5.0, https://cran.r-project.org/web/packages/SCAT. Accessed 21 Nov. 2024.
Previous versions and publish date:
0.3.0 (2017-06-23 08:37), 0.5.0 (2019-02-01 17:43)
Other packages that cited SCAT R package
View SCAT citation profile
Other R packages that SCAT depends, imports, suggests or enhances
Functions, R codes and Examples using the SCAT R package
Full SCAT package functions and examples
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