Professional Interests: Machine Learning, Computational Biology

Answered

How to predict unknown data with a RegressionPartitionedSVM-model

Hi, Let me add to what Shubh already said, the partitioned model contains several models, so which one should be used for predi...

How to predict unknown data with a RegressionPartitionedSVM-model

Hi, Let me add to what Shubh already said, the partitioned model contains several models, so which one should be used for predi...

1 year ago | 1

Answered

How do you convert a tsv or txt file to a GFF file on matlab, with data you've downloading from NCBI or Ensembl ?

There is a demo function ( |ensemblmart2gff| ) in the toolbox/bioinfo/biodemos directory that may help you to get you started. ...

How do you convert a tsv or txt file to a GFF file on matlab, with data you've downloading from NCBI or Ensembl ?

There is a demo function ( |ensemblmart2gff| ) in the toolbox/bioinfo/biodemos directory that may help you to get you started. ...

6 years ago | 0

Answered

Can't set Biograph edges individually

|bg2.edges| is an array of |biograph.edge| objects. With |set| you can set the |LineWidth| porperty of multiple objects to the _...

Can't set Biograph edges individually

|bg2.edges| is an array of |biograph.edge| objects. With |set| you can set the |LineWidth| porperty of multiple objects to the _...

6 years ago | 0

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Answered

Biograph node label elimination. How to?

bg.NodeAutoSize='off' bg.ShowTextInNodes='none' set(bg.Nodes,'Size',[1 1]); set(bg.Nodes,'Shape','circle'); view(b...

Biograph node label elimination. How to?

bg.NodeAutoSize='off' bg.ShowTextInNodes='none' set(bg.Nodes,'Size',[1 1]); set(bg.Nodes,'Shape','circle'); view(b...

6 years ago | 0

Answered

How can I reverse an edge in biograph viewer without redrawing the figure?

You must call the layout engine to redraw graph. This is because in some types of layouts the actual chronological order of the ...

How can I reverse an edge in biograph viewer without redrawing the figure?

You must call the layout engine to redraw graph. This is because in some types of layouts the actual chronological order of the ...

8 years ago | 0

Answered

Saving to BAM files from a BioMap object ?

You can not only split, but you can use this convenient method to filter (or preprocess) your files, for example you can filter ...

Saving to BAM files from a BioMap object ?

You can not only split, but you can use this convenient method to filter (or preprocess) your files, for example you can filter ...

8 years ago | 1

| accepted

Solved

Remove all the consonants

Remove all the consonants in the given phrase. Example: Input s1 = 'Jack and Jill went up the hill'; Output s2 is 'a ...

8 years ago

Solved

Find the longest sequence of 1's in a binary sequence.

Given a string such as s = '011110010000000100010111' find the length of the longest string of consecutive 1's. In this examp...

8 years ago

Solved

Select every other element of a vector

Write a function which returns every other element of the vector passed in. That is, it returns the all odd-numbered elements, s...

8 years ago

Solved

Nearest Numbers

Given a row vector of numbers, find the indices of the two nearest numbers. Examples: [index1 index2] = nearestNumbers([2 5 3...

8 years ago

Solved

Return the largest number that is adjacent to a zero

This example comes from Steve Eddins' blog: <http://blogs.mathworks.com/steve/2009/05/27/learning-lessons-from-a-one-liner/ Lear...

8 years ago

Solved

Determine if input is odd

Given the input n, return true if n is odd or false if n is even.

8 years ago

Solved

Who Has the Most Change?

You have a matrix for which each row is a person and the columns represent the number of quarters, nickels, dimes, and pennies t...

8 years 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 ...

8 years ago

Solved

Make the vector [1 2 3 4 5 6 7 8 9 10]

In MATLAB, you create a vector by enclosing the elements in square brackets like so: x = [1 2 3 4] Commas are optional, s...

8 years 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. Example...

8 years ago

Solved

Column Removal

Remove the nth column from input matrix A and return the resulting matrix in output B. So if A = [1 2 3; 4 5 6]; and ...

8 years 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:...

8 years ago

Answered

How to open a BAM file?

It may be possible that the BAM file is not ordered. The Bioinfomatics Toolbox (12b) automatically indexes the BAM file, but for...

How to open a BAM file?

It may be possible that the BAM file is not ordered. The Bioinfomatics Toolbox (12b) automatically indexes the BAM file, but for...

8 years ago | 0

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Answered

dendrograms in clustergram vs pdist->linkage->dendrogram

Clustergram standardizes the data. I am not sure what release you are using but the way you control this option with the input a...

dendrograms in clustergram vs pdist->linkage->dendrogram

Clustergram standardizes the data. I am not sure what release you are using but the way you control this option with the input a...

8 years ago | 1

Answered

official examples could not run --- bioinformatics toolbox

This a known issue. There are workarounds already published. <http://www.mathworks.com/support/bugreports/865214> HTH L...

official examples could not run --- bioinformatics toolbox

This a known issue. There are workarounds already published. <http://www.mathworks.com/support/bugreports/865214> HTH L...

8 years ago | 1

| accepted

Answered

how to solve Dijkstra algorithm in MATLAB?

I get the distance of 1-16-2-6-10 to be 5.8, while 1-3-6-10 is 5.15. HTH

how to solve Dijkstra algorithm in MATLAB?

I get the distance of 1-16-2-6-10 to be 5.8, while 1-3-6-10 is 5.15. HTH

8 years ago | 0

Answered

msresample error message: The MZ vector is not evenly nor linearly spaced.

Setting the option MISSING to TRUE should only be used when you are certain that the spacing between MZ values follows a linear ...

msresample error message: The MZ vector is not evenly nor linearly spaced.

Setting the option MISSING to TRUE should only be used when you are certain that the spacing between MZ values follows a linear ...

8 years ago | 0

| accepted

Answered

Need access to certain fields using BioMap for .bam file reading

Currently, you'll need to look into the mate, wich you could find using the MatePosition. This is not optimal and would require ...

Need access to certain fields using BioMap for .bam file reading

Currently, you'll need to look into the mate, wich you could find using the MatePosition. This is not optimal and would require ...

8 years ago | 0

Answered

Bioinformatics toolbox - featuresmap question

Razvan: featuresmap cannot do what you need, you'll need to plot the CDS manually, hopefully this gets you started: figu...

Bioinformatics toolbox - featuresmap question

Razvan: featuresmap cannot do what you need, you'll need to plot the CDS manually, hopefully this gets you started: figu...

9 years ago | 0

| accepted

Answered

open huge SAM files

The 4GB limitation for BioIndexedFile (which is the back-end support to read SAM files into BioMap) has been removed in 12a. Bef...

open huge SAM files

The 4GB limitation for BioIndexedFile (which is the back-end support to read SAM files into BioMap) has been removed in 12a. Bef...

9 years ago | 0

| accepted

Answered

HeatMap to Figure in 2009b vs. 2010b

This is a bug in 2010b, this was later fixed. This has a simple workaround, use: plot(hmo,figure('Renderer','ZBuffer','Vi...

HeatMap to Figure in 2009b vs. 2010b

This is a bug in 2010b, this was later fixed. This has a simple workaround, use: plot(hmo,figure('Renderer','ZBuffer','Vi...

9 years ago | 0

| accepted

Answered

FASTA AND BLAST

None of these alignment algorithms are included in Matlab. Do not mix the "fasta" alignment algorithm with the "fasta" file ...

FASTA AND BLAST

None of these alignment algorithms are included in Matlab. Do not mix the "fasta" alignment algorithm with the "fasta" file ...

9 years ago | 1