Answers.Body: <p>Circos: <a href="http://circos.ca/" rel="nofollow noreferrer">http://circos.ca/</a> (or a copy of it written for another language, depending on what the paper's authors used — probably best to check with them).</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-15T09:32:45.303Z
Answers.Text: hey thanks! any tutorial on how to make those maps in circos? i found out that circos kinda hard to use for beginners
Answers.UserDisplayName: raysteven
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-15T09:34:07.717Z
Answers.Text: To expand on this, Circos is an older Perl executable script, a mighty complex one with loads of functionality, but awkward input that requires a few trials. For _scripting_ in Python/Julia/JS the Plotly _module_ has a tool, albeit it slightly trickier to overlay stuff one than for a scatter, while in R there are a few options. the RCircos is the R package that is more faithful to the original Perl functionality I believe.
Answers.UserDisplayName: Matteo Ferla
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-15T17:35:01.160Z
Answers.Text: The quick start guides are the best way to get going with the original Circos: circos.ca/documentation/tutorials/quick_guide It looks complicated, but it is no more difficult to use than any of its imitations, which all require as much work in the end, as the same data are required to make the desired figure.
Answers.UserDisplayName: Alex Reynolds
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-15T06:52:30.860Z
Answers.LastActivityDate: 2021-11-15T17:36:15.910Z
Answers.LastEditDate: 2021-11-15T17:36:15.910Z
Answers.UserDisplayName: Alex Reynolds
Answers.Body: <p>Possibly BRIG (blast ring image generator) was used</p>
  <p><a href="http://brig.sourceforge.net/" rel="nofollow noreferrer">http://brig.sourceforge.net/</a></p>
  <p>I also catalog other tools here if interested <a href="https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&amp;selected=%23BRIG" rel="nofollow noreferrer">https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&amp;selected=%23BRIG</a></p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-17T04:37:51.287Z
Answers.Text: Circos appears to have been published at least two years before BRIG, but no citation. Unfortunate.
Answers.UserDisplayName: Alex Reynolds
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-17T02:47:55.960Z
Answers.LastActivityDate: 2021-11-17T02:47:55.960Z
Answers.UserDisplayName: Colin D
Answers.Body: <p>I tried to used Circos for my MSc Thesis but didn't have enough time to actually learn how to use so I managed to find a less fancy but also cool version of it called <a href="https://pubmed.ncbi.nlm.nih.gov/26227146/" rel="nofollow noreferrer">ClicO.FS</a> which is an interactive web-based service of Circos (as the title of the article below says).</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-11-16T14:10:50.837Z
Answers.LastActivityDate: 2021-11-16T14:10:50.837Z
Answers.UserDisplayName: Alexandria Kouri
Body: <p><a href="https://i.sstatic.net/k7HvH.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/k7HvH.png" alt="Genome Circular Map" /></a></p>
  <p>Does anyone know what tools are used to construct this beautiful genome map?
  The research paper didn't mention how to construct this map.
  Link to paper: <a href="https://www.sciencedirect.com/science/article/pii/S2052297515000773?via%3Dihub" rel="nofollow noreferrer">https://www.sciencedirect.com/science/article/pii/S2052297515000773?via%3Dihub</a></p>
  
Tags: <sequence-annotation>
Title: Does anyone know what tools are used to construct this beautiful genome map?
ThreadText: # Does anyone know what tools are used to construct this beautiful genome map?
  
  (Asked by: username_0 on 2021-11-15)
  
  [![Genome Circular Map](https://i.sstatic.net/k7HvH.png)](https://i.sstatic.net/k7HvH.png)
  
  Does anyone know what tools are used to construct this beautiful genome map?
  The research paper didn't mention how to construct this map.
  Link to paper: <https://www.sciencedirect.com/science/article/pii/S2052297515000773?via%3Dihub>
  
  **Tags:** sequence-annotation
  
  
  ---
  
  ## 3 answers
  
  ### Answer by username_1 on 2021-11-15. Score: 6
  
  Circos: <http://circos.ca/> (or a copy of it written for another language, depending on what the paper's authors used — probably best to check with them).
  
  > **Comments:**
  > **username_0**: hey thanks! any tutorial on how to make those maps in circos? i found out that circos kinda hard to use for beginners  
  > **username_2**: To expand on this, Circos is an older Perl executable script, a mighty complex one with loads of functionality, but awkward input that requires a few trials. For _scripting_ in Python/Julia/JS the Plotly _module_ has a tool, albeit it slightly trickier to overlay stuff one than for a scatter, while in R there are a few options. the RCircos is the R package that is more faithful to the original Perl functionality I believe.  
  > **username_1**: The quick start guides are the best way to get going with the original Circos: circos.ca/documentation/tutorials/quick_guide It looks complicated, but it is no more difficult to use than any of its imitations, which all require as much work in the end, as the same data are required to make the desired figure.  
  
  ---
  
  ### Answer by username_3 on 2021-11-17. Score: 2
  
  Possibly BRIG (blast ring image generator) was used
  
  <http://brig.sourceforge.net/>
  
  I also catalog other tools here if interested <https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&selected=%23BRIG>
  
  > **Comments:**
  > **username_1**: Circos appears to have been published at least two years before BRIG, but no citation. Unfortunate.  
  
  ---
  
  ### Answer by username_4 on 2021-11-16. Score: 2
  
  I tried to used Circos for my MSc Thesis but didn't have enough time to actually learn how to use so I managed to find a less fancy but also cool version of it called [ClicO.FS](https://pubmed.ncbi.nlm.nih.gov/26227146/) which is an interactive web-based service of Circos (as the title of the article below says).
  
  
  ---
  
  