similar to: drawing a line indicating extent of each factored data series in multipanel lattice xyplot

> chromosomes id refseq name length 1 0 NC_000001.9 Homo sapiens chromosome 1 247249719 2 1 NC_000002.10 Homo sapiens chromosome 2 242951149 3 2 NC_000003.10 Homo sapiens chromosome 3 199501827 4 3 NC_000004.10 Homo sapiens chromosome 4 191273063 5 4 NC_000005.8 Homo sapiens chromosome 5 180857866 6 5 NC_000006.10 Homo sapiens chromosome 6

Through converting a miRNAs file from FASTA to character format I get a vector which looks like the following: > nml [1] "hsa-let-7a MIMAT0000062 Homo sapiens let-7a" [2] "hsa-let-7b MIMAT0000063 Homo sapiens let-7b" [3] "hsa-let-7c MIMAT0000064 Homo sapiens let-7c" [4] "hsa-let-7d MIMAT0000065 Homo sapiens

I have the following vector of strings (shown only the first 3 elements) > desc[1:3] [1] "hsa-let-7a MIMAT0000062 Homo sapiens let-7a" [2] "hsa-let-7a* MIMAT0004481 Homo sapiens let-7a*" [3] "hsa-let-7a-2* MIMAT0010195 Homo sapiens let-7a-2*" > is.vector(desc) [1] TRUE > A <- unlist(strsplit(desc[1:3], " ")) > A [1]

Dear All, I need to fetch GO ontologies for Homo sapiens with their mappings to corresponding Uniprot identifiers. I would be using this information to compare result from a clustering algorithm with existing protein complexes. This would be a test to check how the clustering algorithm accurately captures GO terms with respect to the known protein complexes. Can anyone suggest a simple workflow

Hi R-users, I have a data frame like this: photographer category picture points Hannu kalat limamikko 1 Teemu kalat verkkovaja 3 Hate kalat munat puoliks padassa 6 Hannu kalat isokala 8 Teemu kasvit, sienet ja muut eliöt harppi 2 Hate kasvit, sienet ja muut eliöt pyynikki 2 Petteri kasvit, sienet ja muut eliöt harmaaleppä 5 Lauri kasvit, sienet ja muut eliöt lumipuu 9 Teemu linnut kainostelua 1

Hi, I'm making a multipanel lattice densityplot figure with 2 factors (3 and 20 classes in each factor) with the following statement (the type="percent" is there to prevent plotting the actual points which detract from the figure - is there another way of doing this?): densityplot(~End-Begin | Type * Chromosome, data=Mon, layout=c(5,12), xlab="Element

Hi ALL, I have very simple question regarding pattern matching. Could anyone tell me how to I can use R to retrieve string pattern from text file. for example my file contain following information SpeciesCommon=(Human);SpeciesScientific=(Homo sapiens);ReactiveCentres=(N,C,C,C,+ H,O,C,C,C,C,O,H);BondInvolved=(C-H);EzCatDBID=(S00343);BondFormed=(O-H,O-H);Bond+

On 13 October 2015 at 16:41, Rafael Espíndola <llvm-dev at lists.llvm.org> wrote: >> - *Be welcoming.* We strive to be a community that welcomes and supports >> people of all backgrounds and identities. This includes, but is not limited >> to members of any race, ethnicity, culture, national origin, colour, >> immigration status, social and economic class, educational

The "genetics" package for handling single-locus genetic data is now available on CRAN in both source and Windows binary formats. The purpose of this package is to make it easy to create and manipulate genetic information, and to facility use of this information in statistical models. The library includes classes and methods for creating, representing, and manipulating genotypes

The "genetics" package for handling single-locus genetic data is now available on CRAN in both source and Windows binary formats. The purpose of this package is to make it easy to create and manipulate genetic information, and to facility use of this information in statistical models. The library includes classes and methods for creating, representing, and manipulating genotypes

Dear all, I have data.frame object in R. I want to export it in tab-delimited file with several lines of header initiated with comment sign (#). I do not know how to do that in R. Could you please give helps on this problem? Thanks in advance. Best, Jian-Feng, ################################################################## The lines I want to write in the header lines look like, with words

Hi R-users, I have a dataset like this: kuvaaja kuva yhteispisteet Hannu isokala 8 Hannu kaapin alta löytynyt 2 Hannu kaapin alta löytynyt 2 8 Hannu limamikko 1 Hannu maukasta marmeladia 8 Hannu skrinnareita 4 Hate madekoukkujen suojelupyhimys 3 Hate matka aikaan joka ei enää palaa 3 Hate munat puoliks padassa 6 Hate pyynikki 2 Hate vailla armeerausta 2

Dear R-Helpers, I am not very experienced in using lattice and I am still in the learning stage I have a data set which looks like this: (I have deleted a few lines in order to save space) Chromosome marker Marker.Name Distance 1 1 1 PeMm261 0.0000 2 1 2 Xtxp8 10.1013 .. 20 1 20 EbMi148 210.3099 21 1 21 Xtxp25

Dear R community, I need to plot the results of some simulations I did using QTL Cartographer. I am plotting LOD scores over three chromosomes. The three plot have to be one next to the other. The procedure I am using is: par(mfrow=c(1,3)) plot(x$x, x$y, ylim=c(0,35), type="l", col="blue", las=1, xaxs="i", yaxs="i", xlab="X Chromosome",

Hello, I have a list with gene names, fold changes (=expression level) and chromosomes. Names fold change chromosome hz 1.5 2 If I plot fold change versus chromosome (or vice versa): plot (ch, fc) I see only the chromosomes with numbers but not those with letter (x and y). What can I do? A second question: How can I add a single line in that plot at a certain

mcga 1.1 (machine coded genetic algorithms) package implements a genetic algorithm optimisation tool with machine coded chromosomes. The machine coded chromosomes stand for chromosomes that are not decoded and encoded. The byte representation of 'double' type variables are crossed-over and mutated. This is different from the binary coded and real coded genetic algorithms. Linux and

mcga 1.1 (machine coded genetic algorithms) package implements a genetic algorithm optimisation tool with machine coded chromosomes. The machine coded chromosomes stand for chromosomes that are not decoded and encoded. The byte representation of 'double' type variables are crossed-over and mutated. This is different from the binary coded and real coded genetic algorithms. Linux and

On Tue, Oct 13, 2015 at 12:35:07PM -0400, Aaron Ballman via llvm-dev wrote: > On Tue, Oct 13, 2015 at 12:21 PM, Renato Golin via llvm-dev > <llvm-dev at lists.llvm.org> wrote: > > On 13 October 2015 at 16:41, Rafael Espíndola <llvm-dev at lists.llvm.org> wrote: > >>> - *Be welcoming.* We strive to be a community that welcomes and supports > >>>

Dear All, I am newbie to R, and I wanted to plot a barplots with R and in such a way that It will also show me position which I can plot on the bar line. Here is my code that I am using to plot, > chromosome <- c(40.2, 35.6, 36.1, 29.6, 31, 29.6, 31, 29.4, 28.2, 23, 23, 28.2) >barplot (chromosome, col="purple", xlab="Oryza sativa Chromosomes", border = NA, space =

Hi, I would like some extra information on the 'cgh' package in R. I noticed that there isn't much activity regarding this package on the R and BioC mailing list (I googled it). I started using this package and I have few questions: 1/ As I have a custom tiling like array @8um features resolution (affy), I have a lot of probes to work with. I'm assuming it is correct to