search

epaaso / sc-luca-explore

Exploring the luca dataset for building coabundance networks
0 stars 0 forks source link

Annotations on the nature of the datasets #9

Open epaaso opened 10 months ago

epaaso commented 10 months ago

leader3 leader2 leader4 leader5 leader6

Problems with too little cells or very sparse and all around the umap

los demas hasta leader6 no tienen pedos

epaaso commented 10 months ago

Leader 7 spread out - seems to only be immune cells Maier seems to only be immune cells

Must check both papers

epaaso commented 10 months ago

Lambrechts has immune cells reversed of cluster

It was because of reversed axes, but the UMAP is equivalent. The problem is that some labels are missing. This must be because they are very few.

epaaso commented 10 months ago

All of the Leader ones are only immune cells so they don't count. Maier and Lambrechts to check Guo seems to have floats > 1

epaaso commented 10 months ago

Guo is only immune too

epaaso commented 10 months ago

Maier annotates all of its cells as unknown It is only dendritic cells https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7787191/ So al the other types are almost never present.

epaaso commented 7 months ago

Laughney loses around 40% of cells with the recommended filters by luca

epaaso commented 6 months ago

Chen is only mononucleated cells. Which is fine.

epaaso commented 2 weeks ago

Goveia is only endothelial cells

epaaso commented 2 weeks ago

Added info about how adjacent the normal_adjacent samples are. In summary almost always more than 5cm apart.