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Title |
PHYSICO2: an UNIX based standalone procedure for computation of physicochemical, window-dependent and substitution based evolutionary properties of protein sequences along with automated block preparation tool, version 2 |
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Authors |
Shyamashree Banerjee†, Parth Sarthi Sen Gupta†, Arnab Nayek†, Sunit Das, Vishma Pratap Sur, Pratyay Seth, Rifat Nawaz Ul Islam & Amal K Bandyopadhyay* |
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Affiliation |
Department of Biotechnology, The University of Burdwan, Golapbag, Burdwan, 713104, West Bengal, India
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akbanerjee@biotech.buruniv.ac.in; *Corresponding author
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Article Type |
Software
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Date |
Received May 08, 2015; Revised June 15, 2015; Accepted June 16, 2015; Published July 31, 2015
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Abstract |
Automated genome sequencing procedure is enriching the sequence database very fast. To achieve a balance between the entry of sequences in the database and their analyses, efficient software is required. In this end PHYSICO2, compare to earlier PHYSICO and other public domain tools, is most efficient in that it i] extracts physicochemical, window-dependent and homologous-position-based-substitution (PWS) properties including positional and BLOCK-specific diversity and conservation, ii] provides users with optional-flexibility in setting relevant input-parameters, iii] helps users to prepare BLOCK-FASTA-file by the use of Automated Block Preparation Tool of the program, iv] performs fast, accurate and user-friendly analyses and v] redirects itemized outputs in excel format along with detailed methodology. The program package contains documentation describing application of methods. Overall the program acts as efficient PWS-analyzer and finds application in sequence-bioinformatics.
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Availability |
PHYSICO2: is freely available at http://sourceforge.net/projects/physico2/ along with its documentation at https://sourceforge.net/projects/physico2/files/Documentation.pdf/download for all users.
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Keywords |
CYGWIN; ABPT; FASTA; BLOCK; Program; Protein sequence.
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Citation |
Banerjee et al.
Bioinformation 11(7): 366-368 (2015) |
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Edited by |
P Kangueane
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ISSN |
0973-2063
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Publisher |
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License |
This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.
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