I have two question
when I run debreak, I found some error info like:
ERROR: failed to open file 'C16_C_debreak/debreak_resdup_insertseq/chr1__2353209__247__4.fa'
ERROR: failed to open file 'C16_C_debreak/debreak_resdup_insertseq/chr1__10465276__4539__8.fa'
But I get the debreak.vcf files
I'm not sure if these error confidences affect the results
And the other thing is how can I get somatic SV,
If I can call tumor SV use the --tumor mode and call the normal bam SV use the default mode
and then Then look for the difference
I really need your help, I will be grateful if you can reply me in time
I have two question
when I run debreak, I found some error info like:
ERROR: failed to open file 'C16_C_debreak/debreak_resdup_insertseq/chr1__2353209__247__4.fa'
ERROR: failed to open file 'C16_C_debreak/debreak_resdup_insertseq/chr1__10465276__4539__8.fa'
But I get the debreak.vcf files
I'm not sure if these error confidences affect the results
And the other thing is how can I get somatic SV,
If I can call tumor SV use the --tumor mode and call the normal bam SV use the default mode
and then Then look for the difference
I really need your help, I will be grateful if you can reply me in time