User: skjobs0123

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skjobs012330
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Posts by skjobs0123

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Comment: C: GETx patient RNA_Seq read count download
... 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 3 months ago by skjobs012330
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GETx patient RNA_Seq read count download
... 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 ...
genome rna-seq written 3 months ago by skjobs012330 • updated 3 months ago by kristoffer.vittingseerup1.7k
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WGCNA Network Analysis
... 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 ...
R wgcna written 4 months ago by skjobs012330 • updated 4 months ago by Renesh1.6k
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Answer: A: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
... How can perform survival analysis more than one genes like (TP53+PIK3) ...
written 4 months ago by skjobs012330
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Comment: A: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
... 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 7 months ago by skjobs012330
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Comment: C: Amino acid position specific mutation
... Yes... Similar file I have which u written.. ...
written 7 months ago by skjobs012330
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Comment: C: Amino acid position specific mutation
... Yes, I have multiple files and want to do with mutation multiple times in a single file. ...
written 7 months ago by skjobs012330
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Amino acid position specific mutation
... Dear All, I have a bunch of position specific mutation file and sequences file both. I want to mutate that sequences with given position as examples Mutation Position G10M (at position of 10 mutated G to M) Similarly Y70K ( at position of 70 residue mutated Y to K >P00519 MLEICLK ...
software error gene sequence snp written 7 months ago by skjobs012330 • updated 7 months ago by jrj.healey12k
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Comment: A: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
... I'm working on miRNA data analysis from GDC and getting error given below vm <- function(x){ + cond <- factor(ifelse(seq(1,dim(x)[2],1) %in% t_index, 1, 0)) + d <- model.matrix(~1+cond) + x <- t(apply(x,1,as.numeric)) + ex <- voom(x,d,plot=F) ...
written 11 months ago by skjobs012330

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Teacher 6 days 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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