would you kindly integrate UMAP?

[xwxdazhong]

Hi,

I have been using Cytofkit more and more recently, and I think I like it more, the more I use it.
Recently there is a new tool UMAP come up and it is much faster than tSNE, and it also presents more meaningful plots as the distance between dots now reflect the relationship or similarity.
there is a separated package for UMAP for sure, but it is a big pain to give up the developed pipeline and beautiful figure generation tools in cytofkit, would you kindly integrate UMAP in cytofkit some time?

thanks a lot!

Wen

[jinmiaochen]

Hi Wen, Thanks a lot for your feedback. Yes, we are integrating UMAP in cytofkit and will release soon. Best, Jinmiao Jinmiao Chen Principal Investigator Single-cell computational Immunology Singapore Immunology Network (SIgN) Agency for Science, Technology and Research (A*STAR) 8A Biomedical Grove IMMUNOS bldg, Level 3, SINGAPORE 138648 Tel: 65-64070395 Fax: 65-64642056 chen_jinmiao@immunol.a-star.edu.sg<mailto:chen_jinmiao@immunol.a-star.edu.sg> http://www.sign.a-star.edu.sg/ From: xwxdazhong <notifications@github.com> Sent: Monday, 21 January 2019 11:53 AM To: JinmiaoChenLab/cytofkit <cytofkit@noreply.github.com> Cc: Subscribed <subscribed@noreply.github.com> Subject: [JinmiaoChenLab/cytofkit] would you kindly integrate UMAP? (#60) Hi, I have been using Cytofkit more and more recently, and I think I like it more, the more I use it. Recently there is a new tool UMAP come up and it is much faster than tSNE, and it also presents more meaningful plots as the distance between dots now reflect the relationship or similarity. there is a separated package for UMAP for sure, but it is a big pain to give up the developed pipeline and beautiful figure generation tools in cytofkit, would you kindly integrate UMAP in cytofkit some time? thanks a lot! Wen — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub<#60>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AIe92p-UqQUQ47-PGkbscmQaL87GTI1iks5vFTmcgaJpZM4aKD07>. This e-mail and any attachments are only for the use of the intended recipient and may contain material that is confidential, privileged and/or protected by the Official Secrets Act. If you are not the intended recipient, please delete it or notify the sender immediately. Please do not copy or use it for any purpose or disclose the contents to any other person.

[xwxdazhong]

Hi Jinmiao,
thanks a lot for your reply, and it is very nice to know there will be a new version cytofkit with UMAP!
It just made my day!
Wen

[jinmiaochen]

Hi Wen, We have integrated UMAP to cytofkit2, which also comes with new GUI. Please kindly find it at https://github.com/JinmiaoChenLab/cytofkit2 Best, Jinmiao Jinmiao Chen Principal Investigator Single-cell computational Immunology Singapore Immunology Network (SIgN) Agency for Science, Technology and Research (A*STAR) 8A Biomedical Grove IMMUNOS bldg, Level 3, SINGAPORE 138648 Tel: 65-64070395 Fax: 65-64642056 chen_jinmiao@immunol.a-star.edu.sg<mailto:chen_jinmiao@immunol.a-star.edu.sg> http://www.sign.a-star.edu.sg/ From: xwxdazhong <notifications@github.com> Sent: Monday, 21 January 2019 11:08 PM To: JinmiaoChenLab/cytofkit <cytofkit@noreply.github.com> Cc: Chen Jinmiao <Chen_Jinmiao@immunol.a-star.edu.sg>; Comment <comment@noreply.github.com> Subject: Re: [JinmiaoChenLab/cytofkit] would you kindly integrate UMAP? (#60) Hi Jinmiao, thanks a lot for your reply, and it is very nice to know there will be a new version cytofkit with UMAP! It just made my day! Wen — You are receiving this because you commented. Reply to this email directly, view it on GitHub<#60 (comment)>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AIe92iAUr8APnNMyLJ8NBjnEtBOVuYJnks5vFde2gaJpZM4aKD07>. This e-mail and any attachments are only for the use of the intended recipient and may contain material that is confidential, privileged and/or protected by the Official Secrets Act. If you are not the intended recipient, please delete it or notify the sender immediately. Please do not copy or use it for any purpose or disclose the contents to any other person.

[xwxdazhong]

Hi Jimiao,

thanks a lot for the update on UMAP! cannot wait to try it now~

Wen