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Tim DeFreitas


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MathWorks

16 total contributions since 2017

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Answered
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...

16 Tage ago | 0

| accepted

Answered
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...

etwa ein Monat ago | 0

Answered
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...

etwa ein Monat ago | 0

| accepted

Solved


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 ...

etwa ein Monat ago

Solved


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 ...

etwa ein Monat ago

Solved


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...

etwa ein Monat ago

Solved


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...

etwa ein Monat ago

Solved


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:...

etwa ein Monat ago

Answered
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...

4 Monate ago | 0

| accepted

Answered
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...

5 Monate ago | 0

Answered
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: >> ...

9 Monate ago | 0

Answered
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...

etwa ein Jahr ago | 0

| accepted

Answered
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...

etwa ein Jahr ago | 0

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

mehr als ein Jahr ago | 1

| accepted

Answered
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...

mehr als 2 Jahre ago | 3

| accepted

Answered
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...

mehr als 2 Jahre ago | 0