Tag: SNPRelate

Help with PCA plot from SNPRelate

Hello, BioStars community! I am working on a datase of 50 samples(between cases and controls) with genotyping data for ~200 SNPs. I ran SNPRelate PCA analysis without adding population data and tried to plot its results. My PCA plot seems a bit “strange” since the observations did not come together…

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Bioconductor – SNPRelate

DOI: 10.18129/B9.bioc.SNPRelate     This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see SNPRelate. Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data Bioconductor version: 3.12 Genome-wide association studies (GWAS) are widely used to investigate the genetic basis of diseases and…

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Index of /contrib/main/00Archive/SNPRelate

Name Last modified Size Description Parent Directory   –   SNPRelate_0.9.0.tar.gz 2011-08-03 06:26 3.1M   SNPRelate_0.9.1.tar.gz 2011-08-13 13:04 3.1M   SNPRelate_0.9.2.tar.gz 2012-02-02 07:30 1.1M   SNPRelate_0.9.3.tar.gz 2012-03-05 07:20 1.1M   SNPRelate_0.9.4.tar.gz 2012-03-17 09:18 1.1M   SNPRelate_0.9.5.tar.gz 2012-04-25 04:39 1.1M   SNPRelate_0.9.6.tar.gz 2012-07-22 06:19 1.5M   SNPRelate_0.9.7.tar.gz 2012-08-30 05:14 3.0M  …

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PCA on pooled and single individuals

PCA on pooled and single individuals 0 Hello all, I am trying to carry out a population structure analysis using a set of samples that includes pooled and single individuals. After performing the PCA using SNPRelate, pooled individuals are clustered together, which suggests that the sample type is an averaging…

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