How to start a Genome annotation from an assembled genome
Hello, I am very much new to this field of NGS and genomics. I am working with eukaryotic genome and have few files such as scaffold file (assembled genome in fasta format), one structural variant file and one variance calling (vcf) file. The next step is to annotate the genome, and I have no clue where to start from, and how can I use these files to start with. Any help or suggestions will be highly appreciated.
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Some past threads to get you reading/thinking about possibilities:
GAWN - Genome Annotation Without Nightmares
Annotation pipelines in 2018
Best strategy for gene annotation for de novo genome assembly without RNA-seq data
Best state-of-the-art tool for ab initio-based gene prediction / annotation of genome assemblies