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ma-compbio / Higashi

single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
MIT License
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Some problem about color #31

Closed yangfeizZZ closed 1 year ago

yangfeizZZ commented 1 year ago

Hi When i change the UMAP plot color, it not change. So i don't know why. In my label_info.pickle, it have cell information. Thank you for your reply.

ruochiz commented 1 year ago

Hey,

Could you provide more info. Like, how you store cell info in label_info.pickle (how many options are there, like is it a categorical label or a continuous one, if it's categorical, how many categories.), where did you change the color, what's the expected behavior etc.

yangfeizZZ commented 1 year ago

Hello Thank you. My label_info.pickle is like this:{'cell_type': ['CK','CK', 'CK', 'CK','EE','EE','EE','EE'],'batch':['batch1','batch2','batch3']}. I used bokeh to visualization.When i change the color scheme, there is no color change.

Hey,

Could you provide more info. Like, how you store cell info in label_info.pickle (how many options are there, like is it a categorical label or a continuous one, if it's categorical, how many categories.), where did you change the color, what's the expected behavior etc.

ruochiz commented 1 year ago

I see. Um, couple things to check.

  1. Is the cell_type and 'batch' the same length of the cells
  2. You can check the output or log of Higashi_vis on the server you run it on, and it should print sth when you change the color scheme.
yangfeizZZ commented 1 year ago

I know the problem. My cell_type length is same as the contacts length not rather than cells length.

Thank you~~

ruochiz commented 1 year ago

Cool. Glad to help. Closing this issue now.