Comments (3)
Hello @wongkarenhy-hex,
Thanks for pointing out this case.
I would be pleased if you could share the ref.fa and bam files.
My email is [email protected].
Best regards,
Tao
from cutesv.
Hello, @wongkarenhy-hex
Thanks for providing the test datasets.
The confusing read support came from the incomplete regulations in handling variation signatures in the old version. We have improved the regulations in the new version (v2.0.3). You can install the newest version from GitHub via the following commands.
git clone https://github.com/tjiangHIT/cuteSV.git && cd cuteSV/ && python setup.py install
Hope it will help.
Best,
Shuqi
from cutesv.
Thanks for promptly addressing this! I would like to confirm that the new version did find the expected call.
from cutesv.
Related Issues (20)
- Malformed VCF due to `R` reference base HOT 3
- repeat at the SV breakpoint HOT 4
- Supporting gzip ref fasta HOT 2
- Structural variation of species from two different genus
- `--min_size` didn't work HOT 1
- [Question] How are POS, LEN and SEQ of insertions determined HOT 2
- Some bases in the βREFβ column are incorrect, and this occurs in INS (insertion) types. HOT 1
- Question about vcf INFO filed HOT 1
- Installation fails HOT 5
- cython is required at build time but not install time HOT 2
- SV with genotype 0/0 HOT 1
- empty pickle for self mapping HOT 1
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- cutcsv only calls indel HOT 1
- Q: Detection SV by aligning to diploid (not haplotype resolved) genome HOT 2
- Call SV in multiple sample HOT 1
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from cutesv.