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NCBI-0.10
River stage zero No dependents
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/ Bio::SABio::NCBI

here is the data structure for parsed file: %data{ $key => key_text, #the keys are specified in spaices hash (the numbers are the number of blank lines befor the text it self) }

here is the data structure for parsed features: %parsed_features=( $feature_key=>( 'feature_link'=>link, $qualifier=>( 'value' =>value or [value1,value2,...,valueN], 'qualifier_link'=>link or [link1,link2,...,linkN], ) ) ) #if there is more then one same qualifier ,then values are concatu. into one value string ,with delimeter $$$.

here is the data structure for parsed features: %parsed_features=( $feature_key=>( 'feature_link'=>link, $qualifier=>( 'value' =>value or [value1,value2,...,valueN], 'qualifier_link'=>link or [link1,link2,...,linkN], ) ) ) #if there is more then one same qualifier ,then values are concatu. into one value string ,with delimeter $$$.

my ($self,$list_uids,$dopt,$name,$def); this array includes: $self - the class; $list_uids - the ids of the document to download; $dopt - data base of the document(you can't use here $self->{db} that will exclude all search results from athor dbs; $name - the "name" (accession number ) of the document; $def - the definiton of the document; It is anof to specify $list_uids and $dopt for downloading ,thought;

NAME

Bio::SABio::NCBI - Downloads and parse DNA data from NCBI site

SYNOPSIS

  use Bio::SABio::NCBI;

DESCRIPTION

This module works also under Win32 ,it does not require any ather packeges,is much simplier for use and instalation.(after it will be released) .It will *not* force user to learn complicated object relations and behavior ,as the bioperl project,in case he wants to do as simple things as- getting DNA data from the web,parsing it ,searching desirable chunk and (maybe in future) running standart biological algoritms on it. It will be able to download realy big files from NCBI ,such as contigs - not causing server error on the site. The module also can be use with proxes.

EXPORT

None by default.

AUTHOR

Tsirkin Evgeny, <tsurkin@mail.jct.ac.il>

SEE ALSO

perl.