Question: Maker Consensus For Annotations
2
gravatar for diana.leduc
6.5 years ago by
diana.leduc60
Germany
diana.leduc60 wrote:

Hi all,

I am a phD student working on de novo assembly and annotation of a bird genome. I used Maker as annotation pipeline, which ran very well, and I obtained different annotations with evidence from Augustus gene predictor, small EST dataset from my organism and protein sequences from chicken, turkey and zebrafinch. I could combine the different gff files from different scaffolds into one gff file with annotations for the entire genome.

I now have two questions:

  1. What could be the reason that I haven't gotten the protein.fasta and trancript.fasta files

  2. How can I obtain a consensus gene list of different evidences from maker? What I would actually need is the scaffold, coordinates and annotation (gene name) according to the 3 other bird species. Thank you in advance.

Best,

Diana Le Duc

consensus annotation • 2.4k views
ADD COMMENTlink written 6.5 years ago by diana.leduc60

About Q1: Did you use the fasta_merge utility after the Maker pass ended?

ADD REPLYlink modified 6.4 years ago • written 6.4 years ago by Israel Barrantes740
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