Question: PacBio transcriptome and gene annotation
gravatar for Alex
5.4 years ago by
Theodosius Dobzhansky Center for Genome Bioinformatics
Alex1.5k wrote:

I have:

1) well assembled PacBio only genome with related organism with well annotated genes

2) Illumina transcriptome

3) PacBio transcriptome

4) Not so good as expected genes annotation with Maker and Illumina transcriptome

Do you try use PacBio transcriptome for gene annotation with Maker or any other tools?

I'm going to try following approaches:

1) Maker + PacBio transcriptome as is

2) GeneMakerS-T with PacBio transcriptome to get genes model

Any other ideas or hints?

transcriptome pacbio maker genes • 2.0k views
ADD COMMENTlink modified 5.4 years ago by Biostar ♦♦ 20 • written 5.4 years ago by Alex1.5k

I am curious, what is the difference in number of assembled transcripts when comparing pacbio to illumina? Can you get at least 1 pacbio read for every illumina build transcript?

ADD REPLYlink written 5.4 years ago by apelin20470
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