Custom colors for each attribute about cellbrowser HOT 8 CLOSED

Yes! There is the “colors” file in the sample cellbrowser.conf file. It’s a table, comma or tab sep. Two columns, first the value then the color as a six digit hex value. Can you see it in the sample config file ? Otherwise let me know, I can add more examples.

Hi @cancerGen, can you tell me why you didn't see this? I need to make options like this easier to understand. The sample config has this particular statement, but maybe I should highlight these things more in the documentation?

Sorry, I don't understand what you mean with "attribute" - do you mean that the coloring works only for the cell-type meta data field? It should work for any field, as long as the field values match exactly to your colors file...

I'm sorry that I dropped the ball on this! I was traveling and then forgot. Oops. Colors defined in the colors file apply to all fields. It's not just the label field. This is defined in cellbrowser.py line 1180: if colors!=None: colArr = [] foundColors = 0 notFound = set() for val, _ in valCounts: if val in colors: colArr.append(colors[val]) foundColors +=1 else: notFound.add(val) colArr.append(None) # maybe I should fail hard here? if foundColors > 0: fieldMeta["colors"] = colArr if len(notFound)!=0: logging.warn("No default color found for field values %s. They were set to defaults." % notFound) This code is run for every field not just the label field. This may not be very intuitive but it's simple enough. If you have the same value in different field but want different colors for it, then you'd have to use different values, for now. I can change the system, but I think this system should work for you? Now yes, it would have been better if I had replied a month ago...

Hi @cancerGen do you have a publicly visible instance so I could have a look? I’m always interested in how people show things. If I don’t reply in the future don’t hesitate to ping me again.