similar to: Conduct Network Analysis

Greeting. Dear Mr/Mrs/Miss, OTU ID Health Disease Bacterial 1 0.29 0.34 Bacterial 2 0.25 0.07 Bacterial 3 0.06 0.06 Bacterial 4 0.07 0.09 Bacterial 5 0.02 0.05 Above show the first 6 data sets, may I ask that the reason of R show the error like "Error in cor(data) : 'x' must be numeric" ? And how to solve it? Besides, isn't this data can conduct correlation matrix?

Hi Chin Yi, If you are trying to correlate "Health" with "Disease", i.e. cydf<-read.table(text="OTU ID Health Disease Bacterial 1 0.29 0.34 Bacterial 2 0.25 0.07 Bacterial 3 0.06 0.06 Bacterial 4 0.07 0.09 Bacterial 5 0.02 0.05", header=TRUE) print(cor(cydf$Health,cydf$Disease)) [1] 0.7103517 If you are getting that error, it probably means that

On 2017-07-05 11:56, Jim Lemon wrote: > Hi Chin Yi, > If you are trying to correlate "Health" with "Disease", i.e. > > cydf<-read.table(text="OTU ID Health Disease > Bacterial 1 0.29 0.34 > Bacterial 2 0.25 0.07 > Bacterial 3 0.06 0.06 > Bacterial 4 0.07 0.09 > Bacterial 5 0.02 0.05", > header=TRUE) >

Please keep the conversation on the list: Others may be able to help you better than I can. On 2017-07-06 10:38, SEB140004 Student wrote: > Ya. I had successfully got the result. Thank you very much. :) > > Isn't possible for me to obtain the network from the correlation matrix? I know nothing about correlation networks, but by googling I found two R packages, ggraph and corrr,

I think that Goran is right, I didn't take "cor(data)" literally. Jim On Thu, Jul 6, 2017 at 3:38 AM, G?ran Brostr?m <goran.brostrom at umu.se> wrote: > On 2017-07-05 11:56, Jim Lemon wrote: >> >> Hi Chin Yi, >> If you are trying to correlate "Health" with "Disease", i.e. >> >> cydf<-read.table(text="OTU ID Health

I am trying to input an OTU table into EstimateS, however, the format of the OTU table has to be changed to fit the format EstimateS will accept. In R, I would like to change the format of the OTU table (from excel). Here is what I need to do, take Example 1 and create Example 2. The problem is that I have hundreds of OTUs, so I can't do this by hand (and I'd love to have a code that I

Hello, I calculate the correlation between two matrices cor(x,y, method="spearman") and I am wondering if it possible to see only the significant correlations. I can do that for single OTUs with cor.test() command but I would like to have an output for whole matrix. Besides,I would like to plot the relative abundance of each OTU, against the number of significant pair-wise correlations

Dear Mr. and Mrs. I'm very grateful for these software and this list. My question is: when a use linear multiple regression (lm()) for my data, abundance ichthyoplankton ~ salinity + temperature + month of the year(f1 is a factor: 1 for january, 2 for february, ..., 12 for december), the summary() of results is ... Coefficients: Estimate Std. Error t value Pr(>|t|)

Hello! I am eager to learn if I only have a data about the relationship between otu and sample, could I use the function capscale, and final make a point plot that x-axis is CAP1 and y-axis is CAP2? Besides, what function could I use to make the different rarefaction curve with different color in the a plot in R? Appreciate very much.

Hi all, I have the following setup PSTN -> ASTERISK -> IVR (using dialogic card) 1) Caller id information is presented to asterisk during the first and second ring. 2) Hence, Asterisk waits for 2 rings before pickup the call and forwarding to the appropriate FXS port. 3) The IVR application also waits for 2 rings before picking up the call to get the caller id. 4) Hence any caller

Hi, everyone: R is new to me. I am writing a nested loop to simulate data for t-test. The following code is wrong. The subscript is out of bounds. Could anyone tell me how to revise it? Thanks, Riddle Chin. result<-matrix(ncol=5, nrow=1000) colnames(result)<-c('N=20','N=40','N=60','N=80','N=100') for (i in 1:1000){ for (j in

Hi, I''m running SunOS Release 5.10 Version Generic_118855-36 64-bit and in [b]/etc/system[/b] I put: [b]set zfs:zfs_nocacheflush = 1[/b] And after rebooting, I get the message: [b]sorry, variable ''zfs_nocacheflush'' is not defined in the ''zfs'' module[/b] So is this variable not available in the Solaris kernel? I''m getting really poor

i've applied albert chin's patch on configure.in file: http://lists.samba.org/pipermail/rsync/2002-January/005726.html, but i still getting the error: cc: Error: lib/getaddrinfo.c, line 180: In this statement, "EAI_MAX" is not declared. (undeclared) thanks for any advice Martin Sigilfredo _________________________________________________________________ Join the world’s

Hi everyone, i've been trying to make a special plot with ggplot2, but I can't get it to fill the polygon I'd like to see filled so very very much. I want to display the difference or change in the distribution of the modified Rankin Scale between two groups. mRS is a scale for disability or daily activities competence. It looks like this.

I have two data matrices that I want to make the correlation between each column from data1 and each column from data 2 and also calculate the p-value Matrices dont have the same size and I tried such a script. > bg <- read.table (file.choose(), header=T, row.names) > bg > Otu00022 Otu00029 Otu00039 Otu00042 Otu00101 Otu00105 Otu00125 Otu00131 Otu00137 Otu00155 Otu00158 Otu00172

ads_sasl_spnego_krb5_bind fail : Invalid credentials Failed to join domain : Invalid credentials Best regards ================================ ???????? ??? Chin 0922-874-882?0968608-438 ??????????176?3? TEL:02-85025695 #17 Fax:02-85025696 eMail:chin.ho at artt.com.tw ================================

Hi all, since there isn''t good reporting for rails, I''m thinking to use jasper report instead. Can anyone tell me how can I integrated them together? especially how can I pass parameter from rails to jasper report.

I am trying to find the percentage of the parameters explaining the bacterial community composition. I have one data matrix with relative abundance of OTUs and one with environmental parameters. I used varpart in vegan package but the values in the venn diagram is bigger than 100% in total.How is it possible? What might be the reason? Thank you library(vegan) gotud <-

I was attempting to compile some code with a recent (r138716) version of llvm/clang, targeting a cortex-m4 processor. And I get an error like this: CC: sched_garbage.c In file included from sched_garbage.c:43: In file included from ./os_internal.h:48: In file included from /p/nuttx/trunk/nuttx/include/sched.h:47: In file included from /p/nuttx/trunk/nuttx/include/nuttx/sched.h:54: In file

Dear developers, I discovered that directories created by scp when recursive copying into a sgid directory do not inherit the sgid bit. I believe this is a bug. A patch to fix this is attached. Regards, Petr Skovron -------------- next part -------------- --- scp.c.orig 2005-10-11 16:50:17.000000000 +0200 +++ scp.c 2005-10-11 16:57:25.000000000 +0200 @@ -876,8 +876,12 @@