Question: exomeCopy compileCopyCountSegments error
0
gravatar for kkyung412
4 months ago by
kkyung4120
kkyung4120 wrote:

Hello.

I am getting an error message with the exomecopy, compileCopyCountSegments

compileCopyCountSegments(fit.list)

Error in FUN(X[[i]], ...) :

trying to get slot "path" from an object of a basic class ("NULL") with no slots

When I looked at the Fit.list, there was really NULL data How can I handle this?

Please help me.ㅜㅜ [[3]][[15]] NULL

[[3]][[16]] NULL

[[3]][[17]] NULL

[[3]][[18]] NULL

[[3]][[19]] NULL

[[3]][[20]] NULL

[[3]][[21]] NULL

[[3]][[22]] NULL

[[3]][[23]] NULL

[[3]][[24]] NULL

exomecopy • 80 views
ADD COMMENTlink modified 4 months ago by Michael Love26k • written 4 months ago by kkyung4120
Answer: exomeCopy compileCopyCountSegments error
0
gravatar for Michael Love
4 months ago by
Michael Love26k
United States
Michael Love26k wrote:

I haven't touched exomeCopy in years, maybe since 2011, so I don't remember the details. Perhaps there are no calls in fit.list? Can you plot one of the fits to see if there are any calls outside of copy number = 2?

ADD COMMENTlink written 4 months ago by Michael Love26k

hi Michael

I can't draw a plot now. The warning message for exomeCopy was as follows. Please help me.ㅜㅜ

1: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 2: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 3: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 4: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 5: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 6: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 7: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 8: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL 9: In exomeCopy(counts[seqnames(counts) == seq.name], sample.name, : More than 90% of sample counts are zero, exomeCopy will return NULL

ADD REPLYlink written 4 months ago by kkyung4120

It looks like the reason it returns NULL is because there are many 0’s.

ADD REPLYlink written 4 months ago by Michael Love26k

It looks like the reason it returns NULL is because there are many 0’s.

ADD REPLYlink written 4 months ago by Michael Love26k
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