Question: kallisto with reference genome
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gravatar for vm.higareda
10 months ago by
vm.higareda20
vm.higareda20 wrote:

Is it correct to use a reference genome to build a kallisto index and use this index to run kallisto quant?.

I have genome of a bacteria, extracted the complete sequence of the genes and used this multi fasta file to build the index

rna-seq kallisto • 624 views
ADD COMMENTlink written 10 months ago by vm.higareda20
2

I have genome of a bacteria, extracted the complete sequence of the genes and used this multi fasta file to build the index

What you did is correct, but it is not a "reference genome", you may call it reference gene set or simply reference transcriptome.

ADD REPLYlink written 10 months ago by h.mon28k
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