omicsplayground
omicsplayground copied to clipboard
Standardize column names when initializing data
Currently, the naming of columns seems to be inconsistent. I was trying the GSE72056-scmelanoma
data set which caused some problems as ggplot couldn't find the correct columns.
In the genePlots_tsne.RENDER()
function, the returned columns for position are tSNE.x
and tSNE.y
for the example data but X1
and X2
for the melanoma data.
This is because using base plots we didn't rigorously checked the column names, but for example just use the first two columns. The functions pgx.initialize() after loading, could be used to update/standardize namings.
This issue is stale because it has been open for 30 days with no activity. It will close in 14 days.
This issue was closed because it has been inactive for 14 days since being marked as stale.