ENTREZ2(1) NCBI Tools User's Manual ENTREZ2(1)NAME
entrez2 - a graphical client for the NCBI Entrez retrieval system
SYNOPSIS
entrez2
DESCRIPTION
entrez2 is a TCP/IP-based client-server version of WWW Entrez. This means it makes a direct connection with the NCBI databases over the
Internet to retrieve its data. The data comes in a binary form taking up less network bandwidth during transfer.
OPTIONS
None.
AUTHOR
The National Center for Biotechnology Information.
SEE ALSO
<http://www.ncbi.nlm.nih.gov/Entrez/Network/nentrez.overview.html>
NCBI 2007-10-19 ENTREZ2(1)
Check Out this Related Man Page
VECSCREEN(1) NCBI Tools User's Manual VECSCREEN(1)NAME
vecscreen - find nucleic acid segments of possible vector origin
SYNOPSIS
vecscreen [-] [-d str] [-f N] [-i filename] [-o filename]
DESCRIPTION
vecscreen is a system for quickly identifying segments of a nucleic acid sequence that may be of vector origin. NCBI developed vecscreen to
minimize the incidence and impact of vector contamination in public sequence databases. GenBank Annotation Staff use vecscreen to verify
that sequences submitted for inclusion in the database are free from contaminating vector sequence. Any sequence can be screened for vector
contamination using vecscreen.
vecscreen searches a query for segments that match any sequence in a specialized non-redundant vector database (UniVec). The search uses
BLAST with parameters preset for optimal detection of vector contamination. Those segments of the query that match vector sequences are
categorized according to the strength of the match, and their locations are displayed (see example positive result).
vecscreen is designed to quickly check a nucleic acid sequence for the presence of vector contamination and to show which segments within
the sequence may be of vector origin. Although a vecscreen search against UniVec will not identify the vector that is the most likely
source of the contamination, this can usually be deduced from the cloning history of the sequenced DNA.
OPTIONS
A summary of options is included below.
- Print usage message
-d str Database (default = UniVec)
-f N Output format:
0 HTML format, with alignments (default)
1 HTML format, no alignments
2 Text list, with alignments
3 Text list, no alignments
-i filename
Query File (default = stdin)
-o filename
VecScreen report Output File (default = stdout)
AUTHOR
The National Center for Biotechnology Information.
SEE ALSO
<http://www.ncbi.nlm.nih.gov/VecScreen/VecScreen_docs.html>
NCBI 2001-10-05 VECSCREEN(1)
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