## User: ed_isfahani

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#### Posts by ed_isfahani

<prev • 7 results • page 1 of 1 • next >
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... Hello how  can I determine up-regulated and down-regulated genes in result of  metaRNAseq? ...
written 14 months ago by ed_isfahani0
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... Hi, what is the meaning of this function " on.index <- which(filter$on == 1)"? it is a part of metaRNAseq for filter data: ## Filter using Jaccard index for each study filter <- HTSFilter(cds, plot=FALSE) + cds.filter <- filter$filteredData + on.index <- which(filter\$on == 1) + cat(" ...
written 14 months ago by ed_isfahani0 • updated 14 months ago by andrea.rau50
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... Hi, I want to import data to R with the columns name of these: #ID  study1cond1  study1cond1  study1con2  study1con2  study2con1  study2con1  study2con1 #A        430                30                     0                    76                 45                 120            230 #B         34 ...
written 14 months ago by ed_isfahani0 • updated 14 months ago by Wolfgang Huber13k
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... Hi all, I want to do meta-analysis with p-value of DESeq2,as you know there are some NA value for p-value in each experiment. what should I do with them,I can not remove them in each experiment because for meta-analysis I should have value for all of genes. can I use 1 instead of NA or not? if no, ...
written 14 months ago by ed_isfahani0 • updated 14 months ago by Michael Love19k
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Comment: C: pvalue of deseq2
... thank you very much,I thought the normalization use for meta-analysis while it is used for NOIseq. do you know I can use  DESeq2 instead of  DESeq? as I said In the package it is mentioned DESeq or edgeR. ...
written 14 months ago by ed_isfahani0
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Comment: C: pvalue of deseq2
... actually I have 5 experiment of RNAseq data. I want to do meta-analysis by metaseq package. this packag have two method for doing meta-analysis,one work by expression value which calculate noiseq and another work by p-value of deseq or edgeR. when we work with noiseq method, in its function we can ...
written 14 months ago by ed_isfahani0
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... hello all, I want to use p-value of DESeq2 for meta-analysis,I want to know p-value of DESeq2 are normalize?if yes which method DESeq2 use for normalize?  I appreciate your help ...
written 14 months ago by ed_isfahani0 • updated 14 months ago by Ryan C. Thompson6.8k

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