User: swatikrishna113

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Posts by swatikrishna113

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Comment: C: Comparison of TCGA and SRA data
... I used the below code to use Combat to remove batch effects from normal and cancer expected counts seperately. I replaced the negative values with 0 and continued with edgeR. Is this a right way to proceed? sample=c("N1","N2","N3","N4","N5","N6", "N7","N8","N9","N10", "N11","N12" ...
written 2.6 years ago by swatikrishna11310
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Comment: C: Comparison of TCGA and SRA data
... Hello Ron, Sorry for the late reply.yes, i tried Combat,but its giving negative values in the result matrix.How can i give it as an input to edgeR? ...
written 2.6 years ago by swatikrishna11310
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Comparison of TCGA and SRA data
... Hello all, I am currently working on RNA seq analysis of TCGA and SRA cancer data.I have processed the SRA data similar to TCGA by following their pipeline.The problem appears in differential expression analysis.I have used edgeR, voom and DESeq to carry out the DEG analysis using both expe ...
sra diffrential expression tcga rna-seq written 2.6 years ago by swatikrishna11310 • updated 2.5 years ago by Biostar ♦♦ 20

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