<p>I apologise for very basic question but I am very new to biology and have very specific knowledge of this field, I am currently working on Bioinformatics in my machine learning project which is why I need to be sure about obtained results before I proceed. I am not aware of all the tools used in genomics/bioinformatics. I would like to know that what tools can be used if I want to trace and observe the strand orientations in the ancestral inversion mutations? I would like to know the key concepts as well, using which I can automate the process in my program and display the orientation.</p>

CC BY-SA 4.0
2020-07-29T14:34:05.270Z
Hi @Pragati I dunno its difficult to understand your project. Could you define your question, e.g. organism, distrubution. What are is your training sett ... input and output?
M__
CC BY-SA 4.0
2020-07-29T19:20:45.130Z
The question you are asking can be done via phylogeny, HOWEVER your project is to use ML, DNN instead of phylogeny. Personally, I wouldn't fancy taking on the question, because in my view there is too much we don't know. It is just my opinion however.
M__
CC BY-SA 4.0
2020-07-30T10:14:18.613Z
Completely agree that this sounds like a phylogeny project. For a software to find genomic rearrangements (inversions and the like), you can check out Mauve: http://darlinglab.org/mauve/user-guide/introduction.html . But you'll need to break up your project into questions that you can actually tackle, and acquire a lot of domain knowledge.
csgroen
CC BY-SA 4.0
2020-07-30T10:24:21.963Z
@Michael I need to analyse the inversion mutations: Any tool to do this directly will be useful. Thanks for your suggestion I will look into details.
Pragati Bhingare
CC BY-SA 4.0
2020-07-30T10:28:01.937Z
@csgroen I agree that I will have to acquire more knowledge if I am tackling tricky bits of the project. I'll check out the software. Thank you
Pragati Bhingare
CC BY-SA 4.0
2020-07-30T10:41:46.400Z
"inversion mutations" I dunno, I do genetic mechanisms but I don't really understand the term. Is this a reference to a locus, or some sort of compensatory mutation? If it is a inverted locus, is it a reference to the "inversion" as being the mutation?
M__
<phylogenetics><genomics>
"How the clustal omega can be reverse engineered, to trace ancestral inversion mutations via the guide tree?"
# "How the clustal omega can be reverse engineered, to trace ancestral inversion mutations via the guide tree?"

(Asked by: username_0 on 2020-07-29)

I apologise for very basic question but I am very new to biology and have very specific knowledge of this field, I am currently working on Bioinformatics in my machine learning project which is why I need to be sure about obtained results before I proceed. I am not aware of all the tools used in genomics/bioinformatics. I would like to know that what tools can be used if I want to trace and observe the strand orientations in the ancestral inversion mutations? I would like to know the key concepts as well, using which I can automate the process in my program and display the orientation.

**Tags:** phylogenetics, genomics
> **Comments:**
> **username_1**: Hi @Pragati I dunno its difficult to understand your project. Could you define your question, e.g. organism, distrubution. What are is your training sett ... input and output?  
> **username_1**: The question you are asking can be done via phylogeny, HOWEVER your project is to use ML, DNN instead of phylogeny. Personally, I wouldn't fancy taking on the question, because in my view there is too much we don't know. It is just my opinion however.  
> **username_2**: Completely agree that this sounds like a phylogeny project. For a software to find genomic rearrangements (inversions and the like), you can check out Mauve: http://darlinglab.org/mauve/user-guide/introduction.html . But you'll need to break up your project into questions that you can actually tackle, and acquire a lot of domain knowledge.  
> **username_0**: @Michael I need to analyse the inversion mutations: Any tool to do this directly will be useful. Thanks for your suggestion I will look into details.  
> **username_0**: @csgroen I agree that I will have to acquire more knowledge if I am tackling tricky bits of the project. I'll check out the software. Thank you  
> **username_1**: "inversion mutations" I dunno, I do genetic mechanisms but I don't really understand the term. Is this a reference to a locus, or some sort of compensatory mutation? If it is a inverted locus, is it a reference to the "inversion" as being the mutation?  

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## 0 answers

