在MATLAB中创建火山图时出错 [英] Error in creating a volcano plot in MATLAB

问题描述

我是MATLAB的新手，我要做的第一个任务是创建火山图.我一直在使用文档来了解它并开始使用.

I am a complete newbie to MATLAB and the first task I have is to create a volcano plot. I have been using the documentation to understand about it and get started.

我试图在虚拟值上运行它-

I tried to run it on dummy values -

a=[1 2 3]
b=[4.6 2.7 4.5]
c=[0.05 0.33 0.45]

然后我跑-

SigStructure = mavolcanoplot(a, b, c)

我的理解是a代表条件1的基因表达值，b代表条件2，c是a和b中3个数据点的p值列表

My understanding is that a represents the gene expression values for condition 1, b for condition 2, and c is the list of p-values for the 3 data points in a and b.

但是运行此代码会给我错误-

However running this code gives me the error -

Index exceeds matrix dimensions.

Error in mavolcanoplot (line 127)
appdata.effect = X(paramStruct.goodVals) - Y(paramStruct.goodVals);

Error in volc (line 4)
SigStructure = mavolcanoplot(a, b, c)

谁能解释我要去哪里错了?

Can anyone explain where I am going wrong?

推荐答案

由于使用行向量，因此遇到了问题.

You're encountering an issue because you are using row vectors.

在mavolcanoplot函数内部(您可以通过在命令窗口中键入edit mavolcanoplot来查看文件)，有一个用于检查输入的本地函数，称为check_inputdata.

Inside the mavolcanoplot function (you can see the file by typing edit mavolcanoplot in the command window) there is a local function for checking the inputs, called check_inputdata.

您的数据通过所有验证检查，然后遇到以下部分:

Your data passes all of the validation checks, and then encounters this section:

% Here, 'X' and 'Y' are the local names for your inputs 'a' and 'b'
% Below code is directly from mavolcanoplot.m:

% Handle the matrix input. Use its mean values per row
if size(X, 2) > 1
    X = mean(X,2);
end    
if size(Y, 2) > 1
    Y = mean(Y,2);
end

这会将您的输入减少到平均水平.稍后在主函数(第127行)中遇到上述错误，其中paramStruct.goodVals是3元素数组，现在试图索引1元素数组而失败！

This reduces your inputs to their mean. Later in the main function (line 127) you encounter the error as described, where paramStruct.goodVals is a 3 element array, which is now trying to index a 1 element array and fails!

这基本上是调试和阅读文档的一课，其中指出

This is basically a lesson in debugging and reading the documentation, which states

DataX，DataY:如果矩阵，每行是一个基因，则每一列都是一个样本，并且计算每个基因的平均表达值 >.

DataX, DataY: If a [...] matrix, each row is a gene, each column is a sample and an average expression value is calculated for each gene.

您应该使用以下等效方法之一创建列向量输入

You should use one of these equivalent methods to create column vector inputs

a=[1 2 3].';       % Using transpose (.') to create a column vector from a row vector
b=[4.6; 2.7; 4.5]; % Creating a column vector using the semi-colon operator to end each row
c=[0.05
   0.33
   0.45];          % Using actual code layout to create a column vector 

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