You have reached the email server for Group T-10 at Los Alamos National
Laboratory. This email address is used to request automatic distribution
of various packages of software, documentation, data and remote execution
of programs and services.
=============== PACKETS ===============
You can request a package from bioserve by sending a message containing
ONLY the name of the package to this address. The following packages
are available:
====> alpar
This is a program to parse sequences from a pre-defined multiple sequence
alignment output.
====> alwin
This is a program that takes aligned sequences and performs a windowed majority
at each offset. The output is suitable for plotting, and is a good visual tool
for finding similarity and dissimilarity in aligned sequences.
====> cds_benchmark
Coding measure evaluation: source code, data, and benchmarking instructions.
====> cds_discriminant
Coding measure evaluation: discriminants and accuracy results.
====> chromosome-16
PostScript figures and ascii tables from the Second International
Chromosome 16 workshop in Adelaide, Australia.
====> gb-authorin
This directory contains information on AUTHORIN, the GenBank data
submissions tool, and includes directions on how to obtain a copy of
the program and information on the most current versions.
====> gb-awb
This is a postscript file for the GenBank Annotator's Workbench manual.
====> gb-errform
A form for reporting errors in the GenBank database.
====> gb-feature
The GenBank/EMBL/DDBJ Feature Table Definition in Postscript form.
The document is split into 5 parts, with each file containing one
header line with the file order number. We are in the process of
getting the document into a Standard Postscript form. This is
expected out at the end of July.
====> gb-format
Various documents on the GenBank flatfile format. See also gb-feature.
====> gb-ft-proposed
A proposed new version of the GenBank/EMBL/DDBJ Feature Table
definition in Postscript form. The official definition is found
in gb-feature.
09-09-92: version 1.04 is at present undergoing final revisions based
on collaborative discussions between EMBL,DDBJ,NCBI and GenBank; the
draft version has been temporarily removed and will be replaced
by 9-11-92--contact paul gilna, pgil@histone.lanl.gov for further information.
====> gb-journals
In order to avoid duplication of effort, the responsibility for scanning
and maintaining contacts for editorial policies with journals has been
divided between the three databases, GenBank, the EMBL Data Library, and
DDBJ. This is the list of journals that fall in the domain of each database.
====> gb-offsite
03-11-93
gb-offsite
descriptive documentation of direct submissions and update access to the
GenBank submissions database at LANL using network access through the
annotator's workbench (AWB), a data deposition and maintenance
interface to the GenBank relational database.
====> gb-schema
This is a Postscript version of the GenBank schema document.
====> gb-subform
This is the GenBank on-line submission form for use in submitting
sequence data to the GenBank database. This form should be used only
if you are unable to use the Authorin program. For more information on
Authorin, retrieve the bioserve documents in gb-authorin.
====> gb-tp
This is the official description of the GenBank Transaction Protocol, including
the current entity definitions. The files are in troff source format.
====> genfrag
A suite of programs that generates artificial data sets for the purpose of
testing DNA fragment assembly algorithms and software.
Reference: Engle, M.L. and Burks, C. (1993). "Artificially Generated Data Sets
Sets for Testing DNA Fragment Assembly Algorithms." Genomics 16:286-288.
====> inform.src
A program for maintaing a database of DNA sequences and automatically
informing sequence owners of mathces and alignments as the database
is updated with new and revised sequences.
====> limb-data
This is the flatfle of the LiMB database.
====> limb-info
This is information on the LiMB database.
====> qbase-data
A Quantum Chemistry database. A list of the contents with a short description
may be found in qbase-info.
====> qbase-info
Request these files to find out the latest news and contents of qbase-data.
====> score
A Program for Computer-Assisted Scoring of Southern Blots
====> sigma-info
This packet includes general information about the SIGMA graphical
genome map editor available from Los Alamos.
====> signal-scan
A program used to find transcriptional elements in DNA sequences
====> splice_seq
====> trna-scan
trnascan allows the identification of tRNA genes in genomic DNA sequences.
====> trna-scan_v1.3
=============== SERVICES ===============
Or, you can request a service or execution of a program by sending a message
containing ONLY the name of the program (and its options) followed by
any input data to the program. The following programs are available:
====> cdna-inform
An e-mail service to help cDNA sequencing laboratories stay aware of any overlap
in sequencing effort with other investigators. Contact Jim Fickett, at jwf@life.lanl.gov
for usage information.
====> gb-entry
A GenBank flatfile entry retrieval program. USAGE: gb-entry locusname
In addition, this server handles messages beginning with one of the
following command:
help - request for bioserve usage information (this message)
Any message that cannot be interpreted by the server causes this help
file to be sent.
If you need additional help using bioserve, please contact:
michael@genome.lanl.gov
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