lineage tracing

[SuqinYang]

Hi @tianshilu, Thanks for the method! I want to know how to use 'SClineager' to construct a tree with somatic mutations. Can you give me some suggestions? Thank you very much!

[inmybrain]

Hi,

I am Seongoh Park, one of the developers of this package. I am sorry but Tianshi Lu is now working in the industrial fields and I am not sure if I got your question correctly. Does it mean how to visualize the results?

Best,

======================

Seongoh Park, Ph.D

Assistant Professor

School of Mathematics, Statistics and Data Science at Sungshin Women's University 2, Bomun-ro 34da-gil, Seongbuk-gu,

Seoul, Republic of Korea (02844) Office: +82-2-920-7494

2024년 4월 30일 (화) 오후 5:58, sq_Yang @.***>님이 작성:

Hi @tianshilu https://github.com/tianshilu, Thanks for the method! I want to know how to use 'SClineager' to construct a tree with somatic mutations. Can you give me some suggestions? Thank you very much!

— Reply to this email directly, view it on GitHub https://github.com/inmybrain/SClineager/issues/4, or unsubscribe https://github.com/notifications/unsubscribe-auth/ACBF6RLBMZGCI56TY7ORJ5DY75MM7AVCNFSM6AAAAABG72XFCCVHI2DSMVQWIX3LMV43ASLTON2WKOZSGI3TAOJQHE2TGNQ . You are receiving this because you are subscribed to this thread.Message ID: @.***>

[SuqinYang]

Hi, Professor Park， Thanks for your reply. Yes, I would like to know how to use the sclineager to construct a lineage tree based on mutations, so that I can get the lineage relationships between different cells. I don't know how to visualize cells with different mutations as an evolutionary tree.

[inmybrain]

Where exactly do you have difficulty in using our package? That might be easier for me to help you out.

======================

Seongoh Park, Ph.D

Assistant Professor

School of Mathematics, Statistics and Data Science at Sungshin Women's University 2, Bomun-ro 34da-gil, Seongbuk-gu,

Seoul, Republic of Korea (02844) Office: +82-2-920-7494

2024년 4월 30일 (화) 오후 9:14, sq_Yang @.***>님이 작성:

Hi, Professor Park， Thanks for your reply. Yes, I would like to know how to use the sclineager to construct a lineage tree based on mutations, so that I can get the lineage relationships between different cells. I don't know how to visualize cells with different mutations as an evolutionary tree.

— Reply to this email directly, view it on GitHub https://github.com/inmybrain/SClineager/issues/4#issuecomment-2085168132, or unsubscribe https://github.com/notifications/unsubscribe-auth/ACBF6RP2VD5T5JYAJN4AM43Y76DIVAVCNFSM6AAAAABG72XFCCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDAOBVGE3DQMJTGI . You are receiving this because you commented.Message ID: @.***>

[SuqinYang]

After running SClineager，I got these files under the processed folder, Which function can I use to construct a lineage tree like this picture shown in your paper?

[inmybrain]

@wtwt5237 Would you please help this out? I do not have an idea how to create the figure. Was this done in R?