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How to do Genome Annotation?

Dear sir/mam,

In need help regarding Genome Annotation. I have Streptococcus Pneumonia .Fastq data, i have done mapping using bowtie 2 tool and aligned data i converted from .bam file to .fasta format. Know how to do Genome annotation using GeneDB or other tools.

Need help

Thank you

genomeannotation
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updated by sagnik • sagnik • written by gskbioinfo143 • gskbioinfo143

4 answers

You can download the genome assembly and annotation in different format from NCBI: https://www.ncbi.nlm.nih.gov/genome/176 Unless you have a completely novel strain, you should not attempt to annotate yourself.

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written by Michael Dondrup Michael Dondrup

Sorry, I do not understand your request.

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written by Michael Dondrup Michael Dondrup

Use prokka by Torsten Seeman:

http://www.vicbioinformatics.com/software.prokka.shtml

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written by Joe Joe

How about Maker? Have you checked if the genome is not already annotated in Ensembl Bacteria? They've got several strains of Streptococcus pneumoniae in there.

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written by Denise CS Denise CS

Hello,

We have developed a gene annotator called FINDER which can annotate eukaryotic genomes using short-read RNA-Seq reads and protein sequences. It is completely automated and requires no manual intervention. FINDER also runs BRAKER to incorporate predicted genes in the repertoire. You can access the paper from FINDER and the software from here GitHub.

Thank you.

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written by sagnik • sagnik

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