tree_select_probes

Software · Tue Aug 01 04:00:00 EDT 2006

OSTI ID:1328770

Bavykin, Sergey ^[1]; Alferov, Oleg ^[1]

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1. Argonne National Laboratory

This program is part of 3 program package that replaces the older probe selection software. The purpose of the package is to generate probes specific for the group of sequences that belong to a given phylogenetic node. This software employs modified probe selection algorithm tht improves speed of calculations in comparison with older software. For reach node of the input tree, this program selects probes that are positive for all sequences that belong to this node and negative for all that doesn't. For speed, it uses probe database created by build_hybr_index program and hybridization table database created by build_hybrid_table program. As a result of calculation, the program prints lists for each node from the tree. Input file forms: FASTA for sequence database, internal INDEX for probe database, internal table for hybridization database. Output file format: text file.

• Short Name / Acronym: tree_select_probes; 004980IBMPC00
• Site Accession Number: ANL-SF-06-110
• Version: 00
• Programming Language(s): Medium: X; OS: Windows 2000 XP
• Research Organization: Argonne National Laboratory (ANL), Argonne, IL (United States)
• Sponsoring Organization: USDOE Office of Science (SC), Basic Energy Sciences (BES)
• Contributing Organization: Argonne National Laboratory
• DOE Contract Number: AC02-06CH11357
• OSTI ID: 1328770
• Country of Origin: United States