Comments (2)
If not, I personally suggest you to use symbolic format, like:
...
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT .
chr1 32028 . N <INS> 6 PASS SVLEN=64;SVTYPE=INS;END=32029;RE=6 GT 1/1
chr1 90367 . N <INS> 2 PASS SVLEN=59;SVTYPE=INS;END=90368;RE=2 GT 1/1
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Dear LYC-vio:
Sorry for the late response, I have been working on the issue but with little progress. My plan is collect all query sequences supporting each SV call and produce a consensus sequence. Then try to remap the consensus sequence to reference genome and obtain the insert sequence. This approach will improve the breakpoint accuracy but currently my implementation is time consuming. I think I will fix this issue as soon as possible.
Thanks.
Hongyu Ding
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Related Issues (10)
- Any test data? HOT 1
- Segmentation fault HOT 3
- More specified dependency information HOT 2
- Failed to find any matching files for ./type HOT 3
- argument: -outputpath does not work as expected HOT 1
- Segmentation fault while running MAMnet with slurm HOT 1
- pyalign.py file HOT 3
- Deadlock in multiproccessing HOT 5
- MD tags with Nanopore data HOT 3
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