How to copy specific columns of a character array to another character array?

Question

Rasif Ajwad 2015-10-22

0
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此问题的直接链接

https://ww2.mathworks.cn/matlabcentral/answers/250253-how-to-copy-specific-columns-of-a-character-array-to-another-character-array

编辑： Rasif Ajwad 2015-10-22

采纳的回答： Guillaume

在 MATLAB Online 中打开

I have a character array named 'seq' as following:

MRSLMVLALLAVAALCLCLAGPADAKPSSAESRKGGATFVSKREGSEVVRRLRRYLDSGL

MRTPMLLALLALAT--LCLAGRADAKPGDAESGK-GAAFVSKQEGSEVVKRLRRYLDHWL

MRALTLLALLALAT--LCITGQAGAKPSGAESSK-GAAFVSKQEGSEVVKRPRRYLYQWL

MRALTLLALLALAA--LCIAGQAGAKPSGAESSK-GAAFVSKQEGSEVVKRPRRYLYQWL

I want to remove those columns which has more than 50% gaps (-) in them. For example, column 15 has 4 gaps out of 5, so I want to remove that column. After removing these columns, I want to take the rest to another character array (e.g 'mod_seq').

I tried with this code:

 [rowLen, colLen] = size(seq);
count = 0;
mod_col_no = 1;
mod_seq = zeros(rowLen,colLen);
  end
for i=1:colLen
    for j=1:rowLen
        if seq(j,i) == '-' 
            count = count+1;
        end     
    end
    if count > ceil(rowLen/2) 
         continue;
    else
            mod_seq(:,mod_col_no) = seq(:,i);
            mod_col_no=+1;
    end
end
mod_seq = char(mod_seq);

I have tried like this because I cannot initialize 'mod_seq'. I can't simply make the two arrays equal because when I delete columns, mod_seq will have less dimension.

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Answer 1

Guillaume 2015-10-22

1
链接

此回答的直接链接

https://ww2.mathworks.cn/matlabcentral/answers/250253-how-to-copy-specific-columns-of-a-character-array-to-another-character-array#answer_196940

编辑：Guillaume 2015-10-22

在 MATLAB Online 中打开

The way to fix your loop would be to gather the list of columns to delete inside the loop and perform the deletion after the loop.

Even simpler is to not bother with loops at all when a single line of code can do the same:

seq=['MRSLMVLALLAVAALCLCLAGPADAKPSSAESRKGGATFVSKREGSEVVRRLRRYLDSGL';
     'MRTPMLLALLALAT--LCLAGRADAKPGDAESGK-GAAFVSKQEGSEVVKRLRRYLDHWL';
     'MRALTLLALLALAT--LCITGQAGAKPSGAESSK-GAAFVSKQEGSEVVKRPRRYLYQWL';
     'MRALTLLALLALAA--LCIAGQAGAKPSGAESSK-GAAFVSKQEGSEVVKRPRRYLYQWL';
     'MRALTLLALLALAA--LCIAGQAGAKPSGAESSK-GAAFVSKQEGSEVVKRPRRYLYQWL';]
mod_seq = seq(:, sum(seq == '-') < size(seq, 1)/2)