#4 problem of FilterTarget.R

[wenj.zhu]

Hi,

EXCAVATOR2 is great. Recently, I use this software to detect CNV on my whole exome sequencing data. But, FilterTarget.R is complained. Please see the following error. Could you tell me why ? Thanks.

Program folder is: /home/bin/software/EXCAVATOR2_Package_v1.1.2
Checking target file format...
Target file seems properly formatted.
Filtering target from target.bed...
Error in seq.default(0, numstep * step, by = step) :
'to' cannot be NA, NaN or infinite
Calls: seq -> seq.default
Execution halted
Calculating Mappability and GC content...

[wenj.zhu]

[wenj.zhu]

I only want to detect one specific CNV (about 16kb) locating in chr5:90159539-180687864 region. whole exome detection will take long time.
So, I only put the exome interveals within chr5:90159539-180687864 into target.bed file and run TargetPerla.pl. But, it fails.

So, I want to ask, target file shoule include whole exome interveals ?

[wenj.zhu]