Hi,
I have been using TopHat for my RNA mapping and it generated .bam files. Now I need to convert them to .wig files. I used wiggles to do this but found a strange thing like this:
C14190611 97 98 284
C14190611 98 99 274
C14190611 99 99 263
You can see that the last record is definitely wrong, I checked the position with samtools and sugget the positions should be 99-100.
Does anyone know the reason?
BTW, I also tried bedtools and found the depth distribution is inconsistent with wiggles.
I have been using TopHat for my RNA mapping and it generated .bam files. Now I need to convert them to .wig files. I used wiggles to do this but found a strange thing like this:
C14190611 97 98 284
C14190611 98 99 274
C14190611 99 99 263
You can see that the last record is definitely wrong, I checked the position with samtools and sugget the positions should be 99-100.
Does anyone know the reason?
BTW, I also tried bedtools and found the depth distribution is inconsistent with wiggles.