biological replicates analysis

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9.8 years ago

schelarina ▴ 50

Hello,

I have two biological replicates for sRNAseq and I am not sure how I can analyze them. I am not interested in doing differential expression analysis since this samples were not subjected to any treatment. Would it be correct to calculate the average of the coverage per position between the two replicates?

Thanks for your answers

RNA-Seq • 2.2k views

ADD COMMENT • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by schelarina ▴ 50

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What was the goal of the experiment? You don't normally start a project saying, "hey, let's sequence some stuff just for the heck of it!"

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by Devon Ryan 104k

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sRNAseq is what?

not subjected to which treatment?

which species?

which cell line?

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by Manvendra Singh ★ 2.2k

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sRNAseq is smallRNAseq

species: Arabidopsis

for treatment I mean any kind of stresses (biotic or abiotic)

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by schelarina ▴ 50

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Okay,

You could use HT-seq count on individual samples and then probably mean of counts could be assigned to each gene

ADD REPLY • link updated 2.6 years ago by Ram 44k • written 9.8 years ago by Manvendra Singh ★ 2.2k

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