search for: snp5

...me of you can come to my rescue, yet again. I have two genetic datasets, and I want one of the datasets to have only the columns that are in common with the other dataset. Here is a toy example (my real datasets have hundreds of columns): Dataset 1: Individual SNP1 SNP2 SNP3 SNP4 SNP5 1 A G T C A 2 T C A G T 3 A C T C A Dataset 2: Individual SNP1 SNP3 SNP5 SNP6 SNP7 4 A T T G C 5 T A A G G 6 A A T C G I want Dataset1 to have only columns that are also represented in Datase...

...5 194073197 P1007 0.021088 > head(SNP1) Animal Marker x 3213 194073197 P1001 2 1295 194073197 P1002 1 915 194073197 P1004 2 2833 194073197 P1005 0 1487 194073197 P1006 2 1885 194073197 P1007 0 I want these two data frames merged by 'Marker', but when i try > SNP5 <- merge(SNP4, SNP1, by = 'Marker', all = TRUE) Error: cannot allocate vector of size 2.4 Gb In addition: Warning messages: 1: In merge.data.frame(SNP4, SNP1, by = "Marker", all = TRUE) : Reached total allocation of 1535Mb: see help(memory.size) 2: In merge.data.frame(SNP4, S...

Dear R helpers I have a table and i need to make new table table1: sire snp1 snp2 snp3 snp4 snp5 snp6 snp7 snp8 snp9 snp10 snp11 snp12 snp13 snp14 snp15 8877 -1 -1 -1 -1 0 0 -1 -1 -1 0 1 1 1 -1 -1 7765 1 1 1 0 0 0 -1 1 1 1 0 0 0 1 0 8766 1 1 -1 0 -1 -1 0 -1 0 -1 -1 -1 0 1 0 6756 0 1 0 -1 1 -1 -1 0 0 0 0 -1 0 1 1 5644 -1 0 1 -1 0 0 0 0 -1 -1 0 0 0 0 1 I have table2 sire snp1 snp2 snp3 snp...

Hi ihave one table that look like SNP1 SNP2 SNP3 SNP4 SNP5 SIRE1 1 -1 -1 1 -1 SIRE2 1 -1 1 1 1 SIRE3 -1 -1 1 1 0 SIRE4 -1 1 1 0 1 SIRE5 -1 1 -1 -1 1 SIRE6 0 0 0 1 -1 SIRE7 -1 0 -1 1 1 SIRE8 1 -1 NA 0 NA SIRE9 -1 1 1 -1 -1 SIRE10 1 1 1 1 1 table 2 only one line SNP1 SNP2 SNP3...

Hi ihave one table that look like SNP1 SNP2 SNP3 SNP4 SNP5 SIRE1 1 -1 -1 1 -1 SIRE2 1 -1 1 1 1 SIRE3 -1 -1 1 1 0 SIRE4 -1 1 1 0 1 SIRE5 -1 1 -1 -1 1 SIRE6 0 0 0 1 -1 SIRE7 -1 0 -1 1 1 SIRE8 1 -1 NA 0 NA SIRE9 -1 1 1 -1 -1 SIRE10 1 1 1 1 1 table 2 only one line SNP1 SNP2 SNP3 SNP4 SNP5 SIRE100...

...ber of individuals and creating a loop that will randomly simulate it for 10000 times *(permutation)*. I also need to find how I keep the information (p value for each SNP) gathered for all the 10000 iterations. My data set looks like this (n=500): Individual # Phenotype SNP1 SNP2 SNP3 SNP4 SNP5 SNP6 SNP7 SNP8 SNP9 SNP10 SNP11 SNP12 1 0 T T G G A C G T A A T C 2 1 A T C G A C G T A G T C Many thanks, Jonathan [[alternative HTML version deleted]]

...c(0,1,0,-1,-1,1,1,-1,0,1,1,0,0,1,0,-1,-1,NA,0,-1,0,0,1,0), nrow=3, dimnames = list( c("bob", "frita", "trudy"), c("snp1", "snp2", "snp3", "snp4", "snp5","snp6", "snp7", "snp8") ) ) # phenotype data - resistant or susceptible to zombie infection phenotype.data = matrix( c("bob", "frita", "trudy", "resistant", "susceptibl...