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PHP language toolkit with classes for DNA and protein sequence analysis, alignment, database parsing, and other bioinformatics tools Cross-platform: GPL v2 Open Bioinformatics Foundation: Biopython: Python language toolkit Cross-platform: Biopython [2] Open Bioinformatics Foundation: BioRuby: Ruby language toolkit Linux, macOS, Windows [3] GPL ...
Energy Based Multiple Sequence Alignment for DNA Binding Sites: Nucleotides: Local or global: Salama, RA. et al. 2013: FAMSA Progressive alignment for extremely large protein families (hundreds of thousands of members) Protein Global Deorowicz et al. 2016 Free, GPL 3 FSA: Sequence annealing: Both: Global: R. K. Bradley et al. 2008: Geneious
DNADynamo is a commercial DNA sequence analysis software package produced by Blue Tractor Software Ltd [1] that runs on Microsoft Windows, Mac OS X and Linux [2] It is used by molecular biologists [3] to analyze DNA and Protein sequences. A free demo is available from the software developers website.
The Sequence Data Explorer has multiple menu functionalities to help with exporting data, searching alignments, changing display features, highlighting sites, and computing statistics: Data Menu consists of Write Data to File, Translate/Untranslate, Select Genetic Code Table, Setup/Select Genes and Domains, Setup/Select Taxa and Groups, Quit ...
GENSCAN's implementation differs from other programs in multiple ways. A notable difference is the fact that GENSCAN utilizes a genomic sequence model that exclusively focuses double-stranded DNA where genes that are present on both strands are simultaneously analyzed. Also, GENSCAN is capable of analyzing genomes in situations where there are ...
Polony sequencing allows for a high throughput and high consensus accuracies of DNA sequencing based on a commonly available, inexpensive instrument. Also, it is a very flexible technique that enables variable application including BAC (bacterial artificial chromosome) and bacterial genome resequencing, as well as SAGE (serial analysis of gene ...
The method plots data points that represent a specific time and fluorescence intensity at various wavelengths of light to represent a DNA profile. [ 2 ] [ page needed ] In the field of genetics, an electropherogram is a plot of DNA fragment sizes, typically used for genotyping such as DNA sequencing . [ 3 ]
Alignment-free methods can broadly be classified into five categories: a) methods based on k-mer/word frequency, b) methods based on the length of common substrings, c) methods based on the number of (spaced) word matches, d) methods based on micro-alignments, e) methods based on information theory and f) methods based on graphical representation.