BioJava and Sequence alignment

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Difference between BioJava and Sequence alignment

BioJava vs. Sequence alignment

BioJava is an open-source software project dedicated to provide Java tools to process biological data. In bioinformatics, a sequence alignment is a way of arranging the sequences of DNA, RNA, or protein to identify regions of similarity that may be a consequence of functional, structural, or evolutionary relationships between the sequences.

Amino acid

Amino acids are organic compounds that contain both amino and carboxylic acid functional groups.

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Bioinformatics

Bioinformatics is an interdisciplinary field of science that develops methods and software tools for understanding biological data, especially when the data sets are large and complex.

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BioPerl

BioPerl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications.

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Biopython

The Biopython project is an open-source collection of non-commercial Python tools for computational biology and bioinformatics, created by an international association of developers.

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BioRuby

BioRuby is a collection of open-source Ruby code, comprising classes for computational molecular biology and bioinformatics.

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Multiple sequence alignment

Multiple sequence alignment (MSA) is the process or the result of sequence alignment of three or more biological sequences, generally protein, DNA, or RNA.

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Needleman–Wunsch algorithm

The Needleman–Wunsch algorithm is an algorithm used in bioinformatics to align protein or nucleotide sequences.

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Nucleotide

Nucleotides are organic molecules composed of a nitrogenous base, a pentose sugar and a phosphate.

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Open-source software

Open-source software (OSS) is computer software that is released under a license in which the copyright holder grants users the rights to use, study, change, and distribute the software and its source code to anyone and for any purpose.

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Protein Data Bank

The Protein Data Bank (PDB) is a database for the three-dimensional structural data of large biological molecules such as proteins and nucleic acids, which is overseen by the Worldwide Protein Data Bank (wwPDB).

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Smith–Waterman algorithm

The Smith–Waterman algorithm performs local sequence alignment; that is, for determining similar regions between two strings of nucleic acid sequences or protein sequences.

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