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comparison clipkit_repo/docs/frequently_asked_questions/index.rst @ 0:49b058e85902 draft

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"planemo upload for repository https://github.com/jlsteenwyk/clipkit commit cbe1e8577ecb1a46709034a40dff36052e876e7a-dirty"
author padge
date Fri, 25 Mar 2022 13:04:31 +0000
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1 .. _faq:
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4 FAQ
5 ===
6
7 **Does ClipKIT trim amino acids, nucleotides, or codons?**
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9 ClipKIT trims amino acid and nucleotide alignments. Currently, ClipKIT does not trim codons.
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13 **Is there a website application of ClipKIT?**
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15 Currently, ClipKIT is only a command line tool.
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19 **If tree inference with no trim works well, why even trim?**
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21 Tree inference with trimmed multiple sequence alignments is computationally efficient.
22 In other words, shorter alignments require less computational time and memory during tree
23 search. We found that ClipKIT reduced computation time by an average of 20%. As datasets
24 continuously become bigger, an alignment trimming algorithm that can reduce computational
25 time will be of great value.
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29 **I am having trouble install ClipKIT, what should I do?**
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31 Please install ClipKIT using a virtual environment as directed in the installation instructions.
32 If you are still running into issues after installing in a virtual environment, please contact the
33 main software developer via email_ or twitter_.
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35 .. _email: https://jlsteenwyk.com/contact.html
36 .. _twitter: https://twitter.com/jlsteenwyk
37
38 ^^^^^