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Running iqtree in a python script?
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14 months ago
tpaisie • 70
University of Florida

Anyone know how I could run iqtree in a python script? I've been looking at different python packages and seem to have no luck. So if you know how to run iqtree in package or just how to run iqtree in a python script, your help would be greatly appreciated!!

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So do I understand you correctly that this is a command line tool you would like to run automatically with python? I'm completely ignorant about what iqtree is, but I've heard about python.

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yeah so Iqtree is and command line executable that I use and I want to incorporated it into a python script that is a pipeline for making phylogenetic trees.

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In python you can use the subprocess module for activating command line scripts. Also possible but not recommended is os.system.

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