Computational Methods for Bioinformatics. Python 3.4 by Jason Kinser

By Jason Kinser

This textbook offers an creation for computational equipment in bioinformatics utilizing a spreadsheet, Python 3.4 and MySQL. tools are proven to control simple details and to execute universal analytical ideas. this article is designed for the biology scholar that has little or no adventure in machine research.

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5 The GenomeCodonFreqs function. . . . . . . . 6 Calling the Candlesticks function. . . . . . . . . 7 Creating plots for two genomes. . . . . . . . . . 1 The SimpleScore function. . . . . . . . . . . 2 Accessing the BLOSUM50 matrix and its associated alphabet. 3 Accessing an element in the matrix. . . . . . . . 4 Accessing an element in the matrix. . . . . . . . 5 The BlosumScore function. . . . . . . . . . 6 The BruteForceSlide function.

8 The WordCountMat function. . . . . 9 A few statistics. . . . . . . . . . 10The WordFreqMatrix function. . . . . 11The WordProb function. . . . . . . 12The IndicWords function. . . . . . 13Using the IndicWords function. . . . . 14Scoring documents. . . . . . . . . 1 An example query. . . . . . . . . 2 Connecting to MySQL. . . . . . . . 3 Creating a table in MySQL. . . . . . 4 Uploading a CSV file. . . . . . . . 5 Using mysqldump.

Alternative usage. . . . . . . Using Python for character conversions. ABI version number. . . . . . . Reading the first record. . . . . . Interpreting the bytes. . . . . . The ReadRecord function. . . . . The base calls. . . . . . . . The first data record. . . . . . . Retrieving the first channel. . . . . The ReadPBAS function. . . . . xxxi . . ’. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

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