Question: Maker Consensus For Annotations
gravatar for diana.leduc
6.9 years ago by
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.


Diana Le Duc

consensus annotation • 2.6k views
ADD COMMENTlink written 6.9 years ago by diana.leduc60

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

ADD REPLYlink modified 6.9 years ago • written 6.9 years ago by Israel Barrantes780
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 901 users visited in the last hour