User: Chaimaa

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Chaimaa130
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Posts by Chaimaa

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Comment: C: What's the powerful biological methods for significant genes selection?
... @zx8754 what do you mean by example data, I shared some rows and columns among the 219 rows and 25172 columns? i tried your code but doesn't work ...
written 7 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @ zx8754 Hi here are some rows and columns from my data ELMO2 RPS11 PNMA1 MMP2 sample1 -0.73275 0.89175 -1.59775 -1.6905 sample2 -1.358083333 1.381625 0.24475 -0.837333333 sample3 -0.584 1.09 -1.027 0.147 sample4 ...
written 7 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @zx8754 Thanks zx8754, but could you plz explain these lines like the sample(1:10), 90000? My data is of 219*25172 I'm not much familiar with R; Then i can try it. ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @Kevin Blighe Great Kevin! Thanks a lot! One more thing I was working on a small project concerning cancer evolution with CNA and clinical data over 4 pathological stages and I'm planning to prepare a manuscript after finalizing the biological interpretations at each stage and i wonder if you can ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... bcz, I want to apply your next steps of glm and wald test which require as inputs X and Y. Those steps, i honestly don't know to do in MATLAB ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @Kevin Blighe But I want to try glmnet in R to extract genes from the 25172. Those 300 genes i got by using MATLAB. ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @Kevin Blighe Sorry for the multiple questions Kevin I tried both `read.table()` and `fread()` but both of them can(t fully read my large data. They only read the first 16384 columns. you know my data is too large and excel can show only 16384 columns instead of 25172 columns. So in MATLAB, i used ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @Kevin Blighe Yes Kevin that's why i turn to use yr R code now but I'm not unable to read my data into R plz check my line to open the file X<-fread("pathological_data.txt",sep="\t", stringsAsFactors=FALSE, header=TRUE) In case i found also 300 genes by using R, can i still use glm() to pick th ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... @Kevin Blighe, I again have some other questions, and i hope you don't mind it! I performed my analysis using Matlab glmnet package, and now i turned to follow your process mentioned here "A: Multinomial elastic net implementation on microarray dataset" First of all, my data of 2 labels matrix X(`2 ...
written 8 days ago by Chaimaa130
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Comment: C: What's the powerful biological methods for significant genes selection?
... sure , Thanks Kevin! ...
written 12 days ago by Chaimaa130

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