Hi all,
I'm currently thinking to use CLC genomics workbench for analysis of gene expression between 2 sample (fish in 2 different conditions). However, where i got stuck is that my fish does not have a reference genome. So i think that
- I'll use one condition to do a de novo assembly first. This to create a "reference genome" without annotation. Then use the read of 2 condition and map it back to the ref => calculate RPKM => digital gene expression
Is there any problem in my methods ?
I'm currently thinking to use CLC genomics workbench for analysis of gene expression between 2 sample (fish in 2 different conditions). However, where i got stuck is that my fish does not have a reference genome. So i think that
- I'll use one condition to do a de novo assembly first. This to create a "reference genome" without annotation. Then use the read of 2 condition and map it back to the ref => calculate RPKM => digital gene expression
Is there any problem in my methods ?
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