Main retrieval function for GTF files of an organism of interest. By specifying the scientific name of an organism of interest the corresponding GTF file storing the annotation for the organism of interest can be downloaded and stored locally. GTF files can be retrieved from several databases.
a character string specifying the database from which the genome shall be retrieved:
a character string specifying the scientific name of the
organism of interest, e.g.
a character string specifying the location (a folder) in which
the corresponding annotation file shall be stored. Default is
Internally this function loads the the overview.txt file from NCBI:
and creates a directory 'ensembl/annotation' to store the genome of interest as fasta file for future processing. In case the corresponding fasta file already exists within the 'ensembl/annotation' folder and is accessible within the workspace, no download process will be performed.
File path to downloaded annotation file.
1 2 3 4 5 6 7 8 9
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.