User: sancharisircar24

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Posts by sancharisircar24

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DESeq2 Batch effects
... Hello, I need some help regarding this group of RNA-seq data sets on different stress conditions (say A, B and C). The authors who actually performed these experiments performed cluster analysis using FPKM and normalized across all the stress conditions. In the paper, they mentioned they have kept a ...
deseq2 written 12 months ago by sancharisircar240 • updated 12 months ago by Michael Love26k
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Regarding featureCounts and Rsubread
... Hello, I am ***new*** to NGS data analysis. I am working with rice RNA-seq data. I have generated the bam files using Tophat and wish to use edgeR. I need to find the DEGs and also RPKM values at the gene level. There are some issues which I am unable to resolve: 1) For the build which I am using, ...
rnaseq written 2.5 years ago by sancharisircar240
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Regarding the package RankProd
... Dear All, I am working on a number of datasets (different GSE IDs) but on the same Affymetrix platform. I had a basic question on the RankProd method. Do I need to individually normalize the datasets or do I normalize across all the datasets before uploading the expression values in the tool ?   ...
microarray rankprod written 3.6 years ago by sancharisircar240

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