Bioinformatics.org
[NEU MS in Bioinformatics]
Not logged in

Bioinformatics.org
Membership (37285+) Group hosting [?]

Careers
About bioinformatics
Bioinformatics training
Bioinformatics jobs

Research
All information groups
Online databases Online analysis tools Online education tools More tools

Development
All software groups
FTP repository
SVN & CVS repositories [?]
Mailing lists

Forums
News & Commentary
Jobs Forum
(Career Center)

News & Commentary - Message forums

lication examples available
Submitted by Audrius Me?kauskas; posted on Thursday, November 13, 2003
Submitter Despite the previous Sight versions were able to generate cross-platform java applications, they were later only modifyable by a programmer. Since 2.1.2 SP 1 it is possible to save the assembled web agent workflows in a team files (.tjar), alowing later modifications and subsequent code generation. This simple improvement allows us to suggest various examples of the application workflows, leading to easier understanding that can be done with this program.

This release includes sample applications (web robot teams). You need at least version 2.1.2 service pack 1 to open them.

Genome_walker.tjar performs analysis of the given DNA fragment or fragments, representing genome fragment or small (bacterial or viral) genome.

Protein_explorer.tjar performs various analysis on the protein sequence, corresponding the given NCBI accession number. Can take some RNA sequences if the corresponding XML entry contains protein translation.

Specific_range.tjar scans the 200 amino acids upstream the third transmembrane helix for PROSITE hits and NCBI conservative domains. The imput is the list of NCBI accession numbers to the protein sequences. As this is a public example, we used the simple and fast-responding servers.

Blast_blast_blast.tjar can re-submit the received BLAST hits to BLAST similarity search again. The iteration is repeated 3 times. The team investigates problems and possibilites for this way of finding the similarity between proteins, also can be useful in understanding BLAST limitations.

In future, we plan to release more examples. We would be glad to accept and display the user-created applications.

Discussion forums: lication examples available

Expanded view | Monitor forum | Save place

Start a new thread:
You have to be logged in to post a reply.

 

Copyright © 2016 · Scilico, LLC