[R] SNPRelate: Plink conversion

2013-11-08 Thread Danica Fabrigar
Hi, Following my earlier posts about having problems performing a PCA, I have worked out what the problem is. The problem lies within the PLINK to gds conversion. It seems as though the SNPs are imported as samples and in turn, the samples are recognised as SNPs: snpsgdsSummary(chr2L) Some

Re: [R] SNPRelate: Plink conversion

2013-11-08 Thread Bert Gunter
Doesn't this belong on Bioconductor rather than here? -- Bert On Fri, Nov 8, 2013 at 6:04 AM, Danica Fabrigar danica_...@hotmail.com wrote: Hi, Following my earlier posts about having problems performing a PCA, I have worked out what the problem is. The problem lies within the PLINK to gds

Re: [R] SNPRelate: Plink conversion

2013-11-08 Thread Danica Fabrigar
Hi Bert, I thought it was suitable to post the question on the R mailing list first seeing as the problem/question is related to an R package. Danica Date: Fri, 8 Nov 2013 08:14:03 -0800 Subject: Re: [R] SNPRelate: Plink conversion From: gunter.ber...@gene.com To: danica_

Re: [R] SNPRelate: Plink conversion

2013-11-08 Thread Hermann Norpois
2013 08:14:03 -0800 Subject: Re: [R] SNPRelate: Plink conversion From: gunter.ber...@gene.com To: danica_...@hotmail.com CC: r-help@r-project.org Doesn't this belong on Bioconductor rather than here? -- Bert On Fri, Nov 8, 2013 at 6:04 AM, Danica Fabrigar danica_...@hotmail.com