User: skjobs0123
skjobs0123 • 40
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Posts by skjobs0123
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0
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... Why there is huge difference between estimated survival from this script and from cbioportal (https://www.cbioportal.org/)?
How to modify this script to estimate survival similar like cbioportal. (https://www.cbioportal.org/) ...
written 23 hours ago by
skjobs0123 • 40
0
votes
4
answers
56k
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4
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... Can you use all possible cutoff value between the lower and upper quartiles to compute and the best performing threshold to use as a cutoff?. Rather than using the simple medium value of gene expression.
If yes then, how to modify the above script?
I seen lots of difference in survival using med ...
written 11 weeks ago by
skjobs0123 • 40
0
votes
1
answer
174
views
1
answers
... Mean of 0 and standard deviation 1 is it means Z-Score of normal distribution? ...
written 4 months ago by
skjobs0123 • 40
0
votes
1
answer
174
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1
answers
... I was trying to normalized the different transcriptomics expression such as miRNA, mRAN and mutations data. ...
written 4 months ago by
skjobs0123 • 40
5
votes
1
answer
174
views
1
answer
... How to normalize the data set in R using the "Standardized to a mean of 0 and standard deviation 1"? I have a TCGA expression data and want to normalized like above equations. Please write code of R if possible. ...
written 4 months ago by
skjobs0123 • 40
• updated
4 months ago by
ATpoint ♦ 26k
0
votes
1
answer
330
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1
answers
... It's not the TCGA data, It's something else. It's GTEx data has only normal tissue expression. In TCGA there are very few number of normal samples. In GTEx has larger number of normal as compare to TCGA. ...
written 10 months ago by
skjobs0123 • 40
1
vote
1
answer
330
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1
answer
... I'm trying to download the STAD tissue RNA-Seq read count of individual patients. I didn't find any link / source to directly download the tissue specific data
Example
P_ID P1 P2 P3 Pn..
Gene1/trns 12.0 5.0 0 ....n
Gene2 /trans 7.0 ...
written 10 months ago by
skjobs0123 • 40
• updated
10 months ago by
kristoffer.vittingseerup • 2.9k
9
votes
2
answers
629
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2
answers
... I'm trying to use WGCNA for weighted network analysis. I'm getting trouble how to decide this parameter. It's clear how to define and why this has been defined.
#Choosing a soft-threshold to fit a scale-free topology to the network
powers = c(c(1:10), seq(from = 12, to=20, by=2));
What is ...
written 11 months ago by
skjobs0123 • 40
• updated
11 months ago by
Renesh • 1.8k
3
votes
4
answers
56k
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4
answers
... How can perform survival analysis more than one genes like (TP53+PIK3) ...
written 11 months ago by
skjobs0123 • 40
0
votes
4
answers
56k
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4
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... Hey,
I'm getting error in this script
> if (x1 != 'NA' & x2 != 'NA'){
> lines(c(0,x1),c(0.5,0.5),col='blue')
> lines(c(x1,x1),c(0,0.5),col='black')
> lines(c(x2,x2),c(0,0.5),col='red')
> }
Getting such error in my R console
> if (x1 != 'NA ...
written 15 months ago by
skjobs0123 • 40
Latest awards to skjobs0123
Teacher
7 months ago,
created an answer with at least 3 up-votes.
For A: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
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