similar to: R and Genotyping

Dear all, I have some problems to install R-2.4.1 on AIX 5.3. Configure string: ./configure --with-readline=no LDFLAGS='-bshared' --with-jpeglib=no --with-libpng=no --with-lapack=no --prefix=/cineca/prod/Bioinf/R-2.4.1 configure .site= #! /bin/sh CC=xlc F77=xlf MAIN_LDFLAGS=-Wl,-brtl SHLIB_LDFLAGS=-Wl,-G CXX=xlc CXXFLAGS=' -g -O' SHLIB_LDFLAGS=-W1, -G MAKE=gmake Configure ends

Hi, there is something I''m not able to understand about HTB statistics. Why the qdisc show show how many packets are overlimits but in the classes there are always 0 packets overlimits or dropped? I try to expain with a simple example. I create a qdisc htb with only a class and then i do a lot of traffic. pc-innocenti:~# tc qdisc add dev eth0 parent root handle 1: htb default 10

What exactly happens if the sum of the children classes rate is bigger than the parent''s? What if the majority of these classes are using less than the minimum rate established (eg. 0kbps)? -- Marco Casaroli SapucaiNet Telecom +55 35 34712377 ext 5

Hi i have huge traffic going to internet at this moment iam using cisco to do QoS after reading lartc i would like to shift the setup to linux can you any one tell me i have 45mb internet make 40mb for all traffic, and 5mb for voice if Voice not used 45 MB for Data any sample configuration , or example will be good to start with becoz its very high traffic .. so suggest me what server

Hi, I''m getting this warning/error in /var/log/messages: May 26 18:21:05 mail kernel: HTB: quantum of class 10010 is small. Consider r2q change. Its a big deal? What should I do? Many thanks Oliver -- Oliver Schulze L. <oliver@samera.com.py>

re can somebody tell me what am I doing wrong (at this late night hour), because vlan are not getting bridged at all. ifconfig eth0 0.0.0.0 up ifconfig eth1 0.0.0.0 up brctl addbr br0 brctl addif br0 eth0 brctl addif br0 eth1 ifconfig br0 up vconfig add br0 X vconfig add br0 Y X = vlan-ID (example: 222) Y = vlan ID (example: 223) # brctl show bridge name bridge

Hi, I have a Debian based NAT router. How can I manage upstream egress bandwidth based on the LAN ipadress in the network below? My goal is that host1 get a minumum of 10Mbit up/down and host2 gets a minimum of 90Mbit up/down, both max 100Mbit up/down? targethost 172.16.255.254 | | 172.16.0.1 natrouter

Hi everybody! I''m using an edge bridge box with two ethernet cards to shape traffic in a WAN link. I''m running Debian 3.1 stable with kernel 2.6.8 and iproute from packages. I recompiled the kernel with the following built-in options: [*] 802.1d Ethernet Bridging [*] QoS and/or fair queueing <*> HTB packet scheduler <*> SFQ queue [*] QoS support

Sources for versions of R as far back as 0.65, I believe, are available on CRAN. You can try to compile from source. Andy > From: Qun Shi > > Hi, > > I'm trying to use the version of dchip combined with R to > analyze my data. > I need R version 1.6 which fits for dchip as dchip manual said. So I > would appreciate a lot if someone could tell me where I could

Googling for `rw1061.exe' turned up: http://www.cipic.ucdavis.edu/~dmrocke/Class/EAD289D/R/rw1061.exe Andy > From: Qun Shi > > Hi Andy, > > Thanks a lot for your promptly response. I searched the whole > web site, I > found the source code for version 1.6.X. Since I'm not a > computer person, > I don't how to compile it, but what I want is binary file

Happy new year to all; A few days ago, I posted similar problem. At that time, I found out that our R program had been 32-bit compiled, not 64-bit compiled. So the R program has been re-installed in 64-bit and run the same job, reading in 150 Affymetrix U133A v2 CEL files and perform dChip processing. However, the memory problem happened again. Since the amount of physical memory is 64GB, I think

Hi.... I have a question about how to increase my memory size, could someone answer it for me?? I am using Bioconductor in R to calculate gene expression values with mas5, dchip, and mas4. I have only 18 samples, all from Affymetrix U133A Plus 2 arrays, which has ~54,000 genes. My machine equipments are: CPU P4 3.0GHz, and 1GM RAM. Somehow when I was running mas5 in R, it always showed the error

I have just spent a day trying to determine why I seemed to be unable to read a file of microarray expression results into R properly. The file was produced by the Dchip software developed by Li and Wong at Harvard's Department of Biostatistics. It contains rows of tab-delimited fields in the order Probe set identifier Probe set description Array 1 expression Array 1 call Array 2 expression

Hi, all; I know there has been a lot of discussions on memory usage in R. However, I have some odd situation here. Basically, I have a rare opportunity to run R in a system with 64GB memory without any limit on memory usage for any person or process. However, I encountered the memory problem error message like this: Error: cannot allocate vector of size 594075 Kb I got this error message while

To whom it may concern, I am a student from Peking University, China. I am currently doing some microarray data analysis research with Bioconductor package of R. Problem arises when I try to import into R my dataset which contains 109 samples (total size more than 1.4 GB). The memory limit of R makes importing all the samples into one AffyBatch object a "mission impossible" for me.

Hi, I have Agilent and Illumina SNP data. That's the only thing I know about the files - there seem to be no version specification in any of them. Is there a generic genotype calling algorithm that I could try to use on these datasets? thanks, N. -- View this message in context: http://www.nabble.com/generic-genotype-calling-algorithm--tp23141124p23141124.html Sent from the R help

I have been merrily using the genetics package and more specifically have been using the makeGenotypes and genotypes function. I check my accomplishments by going > class(g2) [1] "genotype" "factor" and likewise > class(g1) [1] "genotype" "factor" Yet when I execute a command such as allele count I get this > allele.count(g1) D I [1,]

Sequenom has an odd format of calling a SNP genotype gg [1] "C" "GA" "A" "C" "C" "AG" "C" "C" "T" "G" homozygous A is called A and heterozygous is called AT The genetics package cannot handle the fact that some genotypes are declared with 2 letter while other are declared with only 1.

Dear mailing list, I'm still quite a newbie in the statistical analysis of genotype/allele data, resp. more generally in the analysis of categorical variables. Moreover, I'm currently totally confused by the many R packages available to do such analysis. Here is my case: I've got a list of genes, and a number of case-control population pairs, and for each population and gene, the

Hello, I am having really hard time finding a good article about simulating genotypes of cases and controls at a disease locus using R. if you guys can point me or guide me where i can find more information, it will be helpful. thanks, Claire -- View this message in context: http://www.nabble.com/genotypes-simulation-tp17065607p17065607.html Sent from the R help mailing list archive at