Bioinformatics

Lutbar a pedestrian colormap toolbar contextmenu creator in matlab

The following Matlab project contains the source code and Matlab examples used for lutbar a pedestrian colormap toolbar contextmenu creator. if you are tired of trying colormap(xxx) at the command prompt to find the appropriate colormap for your figure - try LUTBAR LUTBAR creates a colormap toolbar with colormap icons and context menu from ML?s own colormaps and/or additional colormaps for fast colormap switching in a figure LUTBAR comes with various options to define those colormaps that you want to show up on the bar/menu

A tool which can refine a set of multiple alignments to reduce the global alignment score. in matlab

The following Matlab project contains the source code and Matlab examples used for a tool which can refine a set of multiple alignments to reduce the global alignment score. . While tools can generally find the optimal pairwise sequence alignment the same is not true for multiple alignments.

This is a wrapper around the bioinformatics seqlogo function that creates a real matlab figure.

The following Matlab project contains the source code and Matlab examples used for this is a wrapper around the bioinformatics seqlogo function that creates a real matlab figure. . Sequence Logos are a common technique for visualizing the conservation of positions within a multiple sequence alignment.

Seqlogo generator in matlab

The following Matlab project contains the source code and Matlab examples used for seqlogo generator. The seqlogo tool in the bioinformatics toolbox generates good sequence logos, unfortunately they cannot be incorporated into other programs. This routine generates DNA sequence logos as raw images.

Performs kmedioids clustering, requires only a nxn distance matrix d and number of clusters, k. in matlab

The following Matlab project contains the source code and Matlab examples used for performs kmedioids clustering, requires only a nxn distance matrix d and number of clusters, k. . Performs k-mediods clustering; only requires a distance matrix D and number of clusters k.

Confusion matrix matching matrix along with precision, sensitivity, specificity and model accuracy in matlab

The following Matlab project contains the source code and Matlab examples used for confusion matrix matching matrix along with precision, sensitivity, specificity and model accuracy. function [confmatrix] = cfmatrix2(actual, predict, classlist, per, printout) CFMATRIX2 calculates the confusion matrix for any prediction algorithm ( prediction algorithm generates a list of classes to which each test feature vector is assigned ); Outputs: Confusion matrix Also the TP, FP, FN and TN are output for each class based on http://en.

Function to make a contour/pcolor-like plot with multiple colormaps on same figure. in matlab

The following Matlab project contains the source code and Matlab examples used for function to make a contour/pcolor-like plot with multiple colormaps on same figure. . A work-around to get multiple colormaps on same figure. Creates a 'fake' colormap using patches. Work in progress; please let me know of any issues or suggestions.

Confusion matrix, accuracy, precision, specificity, sensitivity, recall, f score in matlab

The following Matlab project contains the source code and Matlab examples used for confusion matrix, accuracy, precision, specificity, sensitivity, recall, f score. function stats = confusionmatStats(group,grouphat) % INPUT % group = true class labels % grouphat = predicted class labels % % OR INPUT % stats = confusionmatStats(group); % group = confusion matrix from matlab function (confusionmat) % % OUTPUT % stats is a structure array % stats.

Bit table based biclustering and frequent closed itemset mining in high dimensional binary data in matlab

The following Matlab project contains the source code and Matlab examples used for bit table based biclustering and frequent closed itemset mining in high dimensional binary data. During the last decade various algorithms have been developed and proposed for discovering overlapping clusters in high-dimensional data.

True positives, false positives, true negatives, false negatives from 2 matrices in matlab

The following Matlab project contains the source code and Matlab examples used for true positives, false positives, true negatives, false negatives from 2 matrices. - This simple function takes in 2 matrices of equal size populated with 1's and 0's and returns the number of True Positives, False Positives, True Negatives, False Negatives in order for precision and recall calculation - 1st matrix is the true matrix - 2nd matrix is the one populated from an algorithm used - Returns error metrics based on a binary classification.

Principal component analysis for large feature and small observation in matlab

The following Matlab project contains the source code and Matlab examples used for principal component analysis for large feature and small observation. Small size of observation and huge features happens a lot in shape/image and bioinformatics analysis. This file provides an alternative way of perform PCA analysis. More detail about PCA please check: http://www.math.fsu.edu/~qxu/TCI.html
The following VB.NET project contains the source code and VB.NET examples used for Simple Multi Threading Example. I've created a simple multi threading program.

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