Enhanced dendrogram with heatmap feature

[rishabh240405]

No description provided.

[jonbrenas]

Thank you @rishabh240405. Would you be able to share a figure showing what this looks like with some of the malariaGEN data?

[rishabh240405]

Thank you @rishabh240405. Would you be able to share a figure showing what this looks like with some of the malariaGEN data?

Dear Sir,

Thank you for reviewing my pull request, I have generated a figure showcasing how the heatmap looks with MalariaGEN data. Please find the attached image for reference.
I created this in a bit of haste, so I believe there’s significant room for improvement. Please let me know if you have any suggestions for refining it further

Also, I sincerely apologize for an oversight in the code I attached for the pull request. It includes both the dendrogram and volcano plot, which may not run together. The volcano plot function, however, runs completely fine on its own. I truly regret not paying closer attention to this and apologize again for any inconvenience caused.

Looking forward to your feedback.

Best regards,
Rishabh Dwivedi

[jonbrenas]

This is great @rishabh240405. Could you create a notebook (e.g., notebooks/enhanced_dendrogram.ipynb) that shows how to use the function?

[rishabh240405]

Thank you for your response, I have created a notebook (VolcanoPlotNotebook .ipynb) demonstrating how to use the function which I have sent to you via mail. Currently, I have used a sample dataset instead of the malaria data from the API. If you prefer, I can update the notebook to use the real dataset. Please let me know your preference, and I'll proceed accordingly. Also please let me know if I can assist and contribute in any other way. Best regards, Rishabh

…

On Wed, Apr 2, 2025 at 7:58 PM Jon Brenas ***@***.***> wrote: This is great @rishabh240405 <https://github.com/rishabh240405>. Could you create a notebook (e.g., notebooks/enhanced_dendrogram.ipynb) that shows how to use the function? — Reply to this email directly, view it on GitHub <#750 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BGZSPXZRJS3OIIIOAXXCZ5T2XPXYFAVCNFSM6AAAAAB2IX7FESVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDONZSG42DKMJWGU> . You are receiving this because you were mentioned.Message ID: ***@***.***> [image: jonbrenas]*jonbrenas* left a comment (malariagen/malariagen-data-python#750) <#750 (comment)> This is great @rishabh240405 <https://github.com/rishabh240405>. Could you create a notebook (e.g., notebooks/enhanced_dendrogram.ipynb) that shows how to use the function? — Reply to this email directly, view it on GitHub <#750 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BGZSPXZRJS3OIIIOAXXCZ5T2XPXYFAVCNFSM6AAAAAB2IX7FESVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDONZSG42DKMJWGU> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[jonbrenas]

Thank you @rishabh240405. It would be great to use the data from the API and push the notebook to this repo.

[rishabh240405]

I was fetching data from the MalariaGEN Data API while working in Google Colab, but I was denied access. I had already filled out the Google form requesting access. I would appreciate it if you could grant me the necessary permissions or guide me on the proper steps to gain access.

Please let me know if any additional information or credentials are required from my end. I have attached a screenshot from Google Colab showing the access denial for your reference.

Looking forward to your response.

[rishabh240405]

I was fetching data from the MalariaGEN Data API while working in Google Colab, but I was denied access. I had already filled out the Google form requesting access. I would appreciate it if you could grant me the necessary permissions or guide me on the proper steps to gain access.

Please let me know if any additional information or credentials are required from my end. I have attached a screenshot from Google Colab showing the access denial for your reference.

Looking forward to your response.

@jonbrenas can you please kindly look for the permission issue for the malariagen data?
thanks

[jonbrenas]

Access is updated twice a week. I will check with the person doing it if you have been added today.

[rishabh240405]

Dear Sir, @jonbrenas
I still haven't received access for the the malariagen data, could you kindly look into this?
I used my college account to fill the form as it is same on my GitHub,
gmail - [email protected]
Thanks

[jonbrenas]

Could you contact [email protected]? They should be able to help you.

[leehart]

Not sure what the status of this PR is.

[jonbrenas]

I think it is abandoned.

[leehart]

Thanks @jonbrenas . If there's no response after a short time (say, September) then I guess we'll close this. This PR can always be resurrected, if needs be.