Hi,
I'm looking to do DGE on an eukaryotic genome of around 450-500MB. It is on an unsequenced species although there are related species that have draft and transcriptome data available. I was planning on doing the four sequences separately for DGE and then pooling the data to make a ref transcriptome.
The company I'm dealing with says they can give me 3-5 million reads per sample on the MiSeq. I'm concerned that this will not give me enough depth of coverage to get any robust differences.
Are my concerns warranted? I would hate to spend all that money and not get interpretable data.
I'm looking to do DGE on an eukaryotic genome of around 450-500MB. It is on an unsequenced species although there are related species that have draft and transcriptome data available. I was planning on doing the four sequences separately for DGE and then pooling the data to make a ref transcriptome.
The company I'm dealing with says they can give me 3-5 million reads per sample on the MiSeq. I'm concerned that this will not give me enough depth of coverage to get any robust differences.
Are my concerns warranted? I would hate to spend all that money and not get interpretable data.
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