NAME

bp_download_query_genbank - script to query Genbank and retrieve records

USAGE

bp_download_query_genbank --query "Neurospora[ORGN]" --db nucest -o Ncrassa_ESTs.fa --format fasta

bp_download_query_genbank --queryfile 'filewithquery' --db nucest -o Ncrassa_ESTs.fa --format fasta 

Other options

Provide ONE of:

 -q --query query string OR
 --queryfile profile file with query OR
 --gi --gis --gifile file with list of GIs to download

Database type:

-d --db database (nucleotide [default], nucest, protein, )

-o --out --outfile output file (results are displayed on screen otherwise)
-f --format sequence file output format (fasta by default)
-v --verbose debugging output

Query options

--maxids maximum number of IDs to retrieve in a set (100 at a time by default)
--reldate 
--maxdate maxdate for a record
--mindate minimum date for record
--datetype edat or mdat (entered or modified)

AUTHOR Jason Stajich

Jason Stajich, jason-AT-bioperl.org