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Issue #3066 has been updated by Peter Cock.
<ul>
<li><strong>Description</strong> updated (<a title="View differences" href="https://redmine.open-bio.org/journals/diff/15413?detail_id=1775">diff</a>)</li>
<li><strong>Status</strong> changed from <i>New</i> to <i>Migrated</i></li>
<li><strong>URL</strong> set to <i>https://github.com/biopython/biopython/issues/1722</i></li>
</ul>
<p>Migrated to GitHub as <a class="external" href="https://github.com/biopython/biopython/issues/1722">https://github.com/biopython/biopython/issues/1722</a></p>
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<h1><a href="https://redmine.open-bio.org/issues/3066#change-15413">Bug #3066: Iterating/looping over colums/rows of a MultipleSeqAlignment</a></h1>
<ul><li>Author: Peter Cock</li>
<li>Status: Migrated</li>
<li>Priority: Normal</li>
<li>Assignee: Biopython Dev Mailing List</li>
<li>Category: Main Distribution</li>
<li>Target version: 1.54b</li>
<li>URL: https://github.com/biopython/biopython/issues/1722</li></ul>
<p>The new MultipleSeqAlignment object (like the old Alignment object it replaces)<br />stores the rows of the alignment as SeqRecord objects. This means column based<br />access is slow.</p>
<p>It can often be useful to be able to iterate over the columns, and a dedicated<br />method to do this should be faster than repeatedly accessing columns by index<br />(either via slicing with <i>getitem</i> or the old get_column method).</p>
<p>A related question here is should the columns be returned as strings or as Seq objects? Possible implementation to follow as a patch...</p>
<fieldset class="attachments"><legend>Files</legend>
<a href="https://redmine.open-bio.org/attachments/download/1490/align_row_col_iter.patch">align_row_col_iter.patch</a>
(3.89 KB)<br />
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