Panel information in CeleScope FocuSCOPE report

[Khillo81]

I would like to suggest that the FocuSCOPE panel information be added to the CeleScope HTML report. This would help in bringing greater transparency and spot mistakes in running the pipeline. For example, we had an issue where the CHIP panel libraries were run with the blood cancer pipeline. The issue would've been spotted much earlier had the panel been included on the report.

Thanks!

[zhouyiqi91]

Hi Khalil, Thanks for your suggestion. I recommend that all future FocuSCOPE panel analyses use the scsnp pipeline (https://github.com/singleron-RD/scsnp). The Workflow Summary section in the HTML report includes information about the target genes used. The mapping between panels and their corresponding target genes can be found here: https://github.com/singleron-RD/scsnp/blob/master/docs/usage.md#target-genes Khalil ***@***.***> 在 2025年4月14日 周一 16:18 写道： I would like to suggest that the FocuSCOPE panel information be added to the CeleScope HTML report. This would help in bringing greater transparency and spot mistakes in running the pipeline. For example, we had an issue where the CHIP panel libraries were run with the blood cancer pipeline. The issue would've been spotted much earlier had the panel been included on the report. Thanks! — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.

[Khillo81]

Hi Yiqi,

Thanks for the response. We are actively promoting the Nextflow pipeline to our customers, but some still prefer to use the more familiar (for them) previous pipeline. In addition, our LIMS is still using the previous one.

Anyway, it was just an idea. If the implementation is more bother than it's worth, we can skip this. I'll suggest that we move the LIMS to the Nextflow pipeline since the filtering is more robust.

Thanks!

Cheers,

Khalil