Delly call on WGS data

[Ceonham]

Hi Tobias, I'm working on plant genomes and tried to use the germline analysis pipeline you gave to call SVs of 10× resequencing data of a panel of over 200 diverse samples. I first used delly call on each sample in parellel and conbined them to generate a sites.bcf using delly merge. However, when I used delly call to genotype all samples, the following error occured: Error: Delly genotyping requires local SV assembly (INFO/CONSENSUS) and breakpoint (INFO/CONSBP) introduced in delly v1.1.7!

Does the germline pipeline fit with my data? Or I have to use delly call to generate the final vcf with a single thread directly (I failed to configure the multi-threading mode so I installed delly via conda)? Looking forward to your reply. Thank you!

[tobiasrausch]

Sorry, this was a bug in delly v1.1.7. I released a new version today (v1.1.8) and now delly merge should keep INFO/CONSBP for genotyping.

[Ceonham]

Thank you Tobias. The new version solved the problem :)

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----------原邮件信息---------- 发件人："Tobias Rausch" @.> 收件人："dellytools/delly" @.> 抄送人："Ceonham" @.>, "Author" @.> 主题：Re: [dellytools/delly] Delly call on WGS data (Issue #355) 发送时间：2023-10-10 20:06:13

Sorry, this was a bug in delly v1.1.7. I released a new version today (v1.1.8) and now delly merge should keep INFO/CONSBP for genotyping.

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[tobiasrausch]

👍