How to take data input from databases for training of beta vulgaris genome
Posted: Fri Nov 20, 2015 12:56 pm
Originally posted in the old forum by SC_LU on 05.05.2014 - 22:55
Hi,
I want use augustus for Beta vulgaris training. But i am little confused what data and from where to take data for training.
1. Form genome tab, beta vulgaris has 9 chromosome (http://www.ncbi.nlm.nih.gov/genome/?term=Beta+vulgaris). so I should download each chromosome separately and make a single file for beta vulgaris genome.fasta. then submit it for whole genome is it like this?
2. I am slightly sure for EST data of this species. when i am looking for est data for from NCBI repository(http://www.ncbi.nlm.nih.gov/nucest/?term=Beta+vulgaris). it has some bogus hit as well. So, taking est like this is also confusing and not sure all the ESTs belongs to same genome.
3. same kind of confusion for Protein.
Plz explain, how to take data(GENOME, EST and PROTEIN) for beta vulgaris training.
Hi,
I want use augustus for Beta vulgaris training. But i am little confused what data and from where to take data for training.
1. Form genome tab, beta vulgaris has 9 chromosome (http://www.ncbi.nlm.nih.gov/genome/?term=Beta+vulgaris). so I should download each chromosome separately and make a single file for beta vulgaris genome.fasta. then submit it for whole genome is it like this?
2. I am slightly sure for EST data of this species. when i am looking for est data for from NCBI repository(http://www.ncbi.nlm.nih.gov/nucest/?term=Beta+vulgaris). it has some bogus hit as well. So, taking est like this is also confusing and not sure all the ESTs belongs to same genome.
3. same kind of confusion for Protein.
Plz explain, how to take data(GENOME, EST and PROTEIN) for beta vulgaris training.