I have a bit of trouble here to program in r. I am anew user but i really enjoy working with it.I have a large number of variables in a matrix that are arranged sequentially on a line (chromosome). This order has to be maintained whatsoever. I am to develop an r algorithm that will develop groups as follows;i) Calculate the correlation between successive variables and correlation matrix for all the variables ii) if r(i) is the maximum correlation coefficient in the successive variable correlation then my first group has variables [x(i-k ), ...x(i),... x(i+k )]. this gives me group one of size 2k+1. note that variables are picked on that line and order is maintained.iii) we check for remaining correlation btn successive variables relative to the bigger correlation matrix and select? other groups. these groups don't need to be of same size and they must not overlap.i will have divided in to disjoint groups but maintaining the order.kindly assist me see how i can get this done, thanks [[alternative HTML version deleted]]
Hi 1. Do not post in html 2. Post example of data, preferably by dput function 3. Based on posted data explain what do you want to achieve 4. As it seems to be biological issue did you look at Bioconductor? Cheers Petr> -----Original Message----- > From: r-help-bounces at r-project.org [mailto:r-help-bounces at r- > project.org] On Behalf Of Cox Lwaka > Sent: Thursday, November 13, 2014 11:50 AM > To: r-help at r-project.org > Subject: [R] hi > > I have a bit of trouble here to program in r. I am anew user but i > really enjoy working with it.I have a large number of variables in a > matrix that are arranged sequentially on a line (chromosome). This > order has to be maintained whatsoever. I am to develop an r algorithm > that will develop groups as follows;i) Calculate the correlation > between successive variables and correlation matrix for all the > variables > ii) if r(i) is the maximum correlation coefficient in the successive > variable correlation then my first group has variables [x(i-k ), > ...x(i),... x(i+k )]. this gives me group one of size 2k+1. note that > variables are picked on that line and order is maintained.iii) we check > for remaining correlation btn successive variables relative to the > bigger correlation matrix and select other groups. these groups don't > need to be of same size and they must not overlap.i will have divided > in to disjoint groups but maintaining the order.kindly assist me see > how i can get this done, thanks > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting- > guide.html > and provide commented, minimal, self-contained, reproducible code.________________________________ Tento e-mail a jak?koliv k n?mu p?ipojen? dokumenty jsou d?v?rn? a jsou ur?eny pouze jeho adres?t?m. Jestli?e jste obdr?el(a) tento e-mail omylem, informujte laskav? neprodlen? jeho odes?latele. Obsah tohoto emailu i s p??lohami a jeho kopie vyma?te ze sv?ho syst?mu. Nejste-li zam??len?m adres?tem tohoto emailu, nejste opr?vn?ni tento email jakkoliv u??vat, roz?i?ovat, kop?rovat ?i zve?ej?ovat. Odes?latel e-mailu neodpov?d? za eventu?ln? ?kodu zp?sobenou modifikacemi ?i zpo?d?n?m p?enosu e-mailu. V p??pad?, ?e je tento e-mail sou??st? obchodn?ho jedn?n?: - vyhrazuje si odes?latel pr?vo ukon?it kdykoliv jedn?n? o uzav?en? smlouvy, a to z jak?hokoliv d?vodu i bez uveden? d?vodu. - a obsahuje-li nab?dku, je adres?t opr?vn?n nab?dku bezodkladn? p?ijmout; Odes?latel tohoto e-mailu (nab?dky) vylu?uje p?ijet? nab?dky ze strany p??jemce s dodatkem ?i odchylkou. - trv? odes?latel na tom, ?e p??slu?n? smlouva je uzav?ena teprve v?slovn?m dosa?en?m shody na v?ech jej?ch n?le?itostech. - odes?latel tohoto emailu informuje, ?e nen? opr?vn?n uzav?rat za spole?nost ??dn? smlouvy s v?jimkou p??pad?, kdy k tomu byl p?semn? zmocn?n nebo p?semn? pov??en a takov? pov??en? nebo pln? moc byly adres?tovi tohoto emailu p??padn? osob?, kterou adres?t zastupuje, p?edlo?eny nebo jejich existence je adres?tovi ?i osob? j?m zastoupen? zn?m?. This e-mail and any documents attached to it may be confidential and are intended only for its intended recipients. If you received this e-mail by mistake, please immediately inform its sender. Delete the contents of this e-mail with all attachments and its copies from your system. If you are not the intended recipient of this e-mail, you are not authorized to use, disseminate, copy or disclose this e-mail in any manner. The sender of this e-mail shall not be liable for any possible damage caused by modifications of the e-mail or by delay with transfer of the email. In case that this e-mail forms part of business dealings: - the sender reserves the right to end negotiations about entering into a contract in any time, for any reason, and without stating any reasoning. - if the e-mail contains an offer, the recipient is entitled to immediately accept such offer; The sender of this e-mail (offer) excludes any acceptance of the offer on the part of the recipient containing any amendment or variation. - the sender insists on that the respective contract is concluded only upon an express mutual agreement on all its aspects. - the sender of this e-mail informs that he/she is not authorized to enter into any contracts on behalf of the company except for cases in which he/she is expressly authorized to do so in writing, and such authorization or power of attorney is submitted to the recipient or the person represented by the recipient, or the existence of such authorization is known to the recipient of the person represented by the recipient.
Thanks,Following your explanation i have through bi conductor but still unable
to figure out how to group. for the data, my data takes values 0,1,2? hence
simulating from a multinomial distribution such as (rmultinom(10, size = 3, prob
= c(0.1,0.2,0.8))) gives 10 variables from three individuals assume this
variables are ordered.I am to develop an r algorithm that will develop groups as
follows;
i) Calculate the correlation between successive variables and correlation matrix
for all the variables
ii) if r(i) is the maximum correlation coefficient in the successive variable
correlation then my first group has variables [x(i-k ), ...x(i),... x(i+k )].
this gives me group one of size 2k+1. note that variables are picked on that
line and order is maintained.iii) the max r is removed from the list of
successive correlation between variables, but we don't recalculate the
correlation since this will destroy the array.
iv)check for remaining correlation btn successive variables relative to the
bigger correlation matrix and select? other groups. these groups don't need
to be of same size and they must not overlap.
e.g,if for instance? x1, x2,......x10?? are my 10 variables. i calculate
correlation btn successive variable. Say the max correlation is? Cor(x4,x5) i
take group one to have values (x2,x3,x4,x5),?? my data remains, ?
x1,-,-,-,-,x6,x7,x8,x9,x10. Clearly x1 will form a group and the algorithm has
to check for other groups form x6,x7,x8,x9,x10 based on max r and also the
correlation matrix.
Note that i have large number of variables. i don't need the groups to
overlap
i will have divided in to disjoint groups but maintaining the order.
kindly assist me see how i can get this done, thanks
On Thursday, November 13, 2014 1:50 PM, Cox Lwaka <clwaka at
yahoo.com> wrote:
I have a bit of trouble here to program in r. I am anew user but i really enjoy
working with it.I have a large number of variables in a matrix that are arranged
sequentially on a line (chromosome). This order has to be maintained whatsoever.
I am to develop an r algorithm that will develop groups as follows;i) Calculate
the correlation between successive variables and correlation matrix for all the
variables
ii) if r(i) is the maximum correlation coefficient in the successive variable
correlation then my first group has variables [x(i-k ), ...x(i),... x(i+k )].
this gives me group one of size 2k+1. note that variables are picked on that
line and order is maintained.iii) we check for remaining correlation btn
successive variables relative to the bigger correlation matrix and select? other
groups. these groups don't need to be of same size and they must not
overlap.i will have divided in to disjoint groups but maintaining the
order.kindly assist me see how i can get this done, thanks
[[alternative HTML version deleted]]