Open vinothkr11 opened 3 years ago
Also, my gene count and bin count values are all zero.
Hi, thanks for using ASpli!
In order to help you, can you tell me please:
-Chromosome names are the same in your alignment and your anntoation ? You can use:
seqlevels(genomeTxDb)
And for bam files:
samtools view -H your.bam
-Which genome is it?
Yes, I would avoid as much as possible "not confident" annotations, assemblies... (ChrUN)
Can you paste your doubt here, so more people can contribute to solve this issue?
https://support.bioconductor.org/
thanks a lot!
Hi Estefania, I am running into multiple errors with the jCounts function.
First I had a "NAs are not allowed in subscripted assignments" error - that I was able to overcome by removing NAs from the joint counts in the ASpli counts dataset.
Now, I am getting the following error
"Error in h(simpleError(msg, call)) : error in evaluating the argument 'x' in selecting a method for function 'merge': no rows to aggregate"
Do you think I should get rid of the ChrUN as most of the warnings are related to it?
Thanks.