Comments (10)
Replacing the NA's still throws error
Error in MASS::isoMDS(.data, k = 2, trace = F) : zero or negative distance between objects 1 and 2
from immunarch.
sorry for the late response! Is it possible to replace NAs and try again if it works?
res = repOverlapAnalysis(imm_ov1, "mds+kmeans")
res[is.na(res)] = 0
from immunarch.
Ping about the repOverlap MDS issues @peter-yufan-zeng
from immunarch.
Thank you, will look into this as well. Thank you a lot for coming back and helping us improve the package, @peter-yufan-zeng !
from immunarch.
@vadimnazarov no problem. I am a huge fan of the package and appreciate your help 👍
from immunarch.
Having the same issue, thanks!
from immunarch.
Same for me.
from immunarch.
Hi,
I am having the same issue. Is there any solution for this error?
Thanks!
Parvathi.
from immunarch.
Hi, I tried to reproduce it on the dev version of immunarch and test data data(immdata)
, but I don't have any problems. Could you share the overlap matrix here? What version of the package are you using?
from immunarch.
@vadimnazarov Hi I guess it is caused by the zero value in the overlap matrix, you can try overlap matrix with multiple 0 to reproduce the error
from immunarch.
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