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Tim DeFreitas

Last seen: 2日 前 |  2017 年からアクティブ

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If I have a primer with redundant bases, how do I generate all associated primer combinations
Per your last comment, here's a longer but more robust approach that works regardless of where the ambiguous bases are in the pr...

12ヶ月 前 | 0

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If I have a primer with redundant bases, how do I generate all associated primer combinations
Here's one way to do it: options = ['CT' 'AG' 'CG' 'AT' 'GT' 'AC']; % Enumerate indices into options producing valid primers...

12ヶ月 前 | 0

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Random amino acid sequence generation with a given amino acid count of a specified sequence
If you want exactly the same amino acid counts, then you want to randomly shuffle the input sequence, which can be done with ran...

2年弱 前 | 1

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molviewer is blank. How can I get the Molecule Viewer to display the image?
Unfortunately, the Bioinformatics Toolbox is not yet fully compatible with MATLAB Online, and molviewer is only supported in des...

2年弱 前 | 2

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How do I change the default background color of view(biograph) objects created in MATLAB?
There isn't a native way to set the background color of the biograph viewer. You can select "File > Print to Figure" to get a no...

3年以上 前 | 1

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What's the diff between seqfilter & seqtrim?
Rik is correct, seqfilter will filter out entire reads from a FASTQ file, whereas seqtrim modifies the sequences themselves. seq...

4年弱 前 | 0

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How can i compute Amino Acid composition for my protein sequence data?
If you have the Bioinformatics Toolbox, there's also the AACOUNT function:https://www.mathworks.com/help/bioinfo/ref/aacount.htm...

約4年 前 | 0

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Get M/Z values in a msheatmap/msdotplot overlay with a pixel pseudocolor value greater than 120 (the range is 0 - 195)?
Rather than inspecting the range of colors in the heatmap after it's produced, I'd suggest finding the values in Y that are abov...

約4年 前 | 0

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Alphabetize by last name
Given a list of names in a cell array, sort the list by the last name. So if list = {'Barney Google','Snuffy Smith','Dagwood ...

約4年 前

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Find the sum of all the numbers of the input vector
Find the sum of all the numbers of the input vector x. Examples: Input x = [1 2 3 5] Output y is 11 Input x ...

約4年 前

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Determine whether a vector is monotonically increasing
Return true if the elements of the input vector increase monotonically (i.e. each element is larger than the previous). Return f...

約4年 前

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Make a checkerboard matrix
Given an integer n, make an n-by-n matrix made up of alternating ones and zeros as shown below. The a(1,1) should be 1. Examp...

約4年 前

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Times 2 - START HERE
Try out this test problem first. Given the variable x as your input, multiply it by two and put the result in y. Examples:...

約4年 前

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Bioinfomatics toolbox hardware optmization?
The Bioinformatics Toolbox does not have any native alignment functions; for now it relies on Bowtie2, which is available as a s...

約4年 前 | 0

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MATLAB aminolookup converting reference
There is no inherent meaning to the values assigned to each amino acid, they are arbitrary. In general, they are in alphabetical...

4年以上 前 | 0

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how to avoid scientific notation when dealing with large integers?
If you really need a string of equivalent digits, you can just use num2str on the array of integers, and remove the spaces: >> ...

4年以上 前 | 0

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How to perform taxonomic analysis of 16s rRNA NGS .fastq files?
A complete answer to this question is outside the scope of a single MATLAB Answers post, I suggest reading some published papers...

約5年 前 | 0

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How can I use knnimpute while having all rows of the input matrix with at least one missing value?
This is an older question, but in case anyone comes across this answer looking for further explanation: knnimpute only calculat...

約5年 前 | 0

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Alignment(3,:) in seqinsertgaps
The alignment returned by nwalign is a 3xN character array showing the optimal alignment between the two input protein sequences...

5年以上 前 | 1

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Fold Change Plot in "Identifying Differentially Expressed Genes from RNA-Seq Data" Matlab example
Mairplot calculates the foldChange (the Y-axis in the plot) from the meanTreated and meanUntreated samples behind the scenes; th...

6年以上 前 | 3

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Mavolcanoplot Warning: Negative values are ignored problem.
mavolcanoplot assumes the input data are gene expression values, and a negative expression value is assumed to be invalid, becau...

6年以上 前 | 0