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Hello,
I am using the Whole Genome Germline Single Sample workflow for big WGS experiments. I notices that the task of sorting bam after MarkDuplicates is consuming from 60% to 80% of the execution …
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There are a couple bams in my data set that routinely fail to be processed due to SpliceWiz saying the process seems 'sluggish.' They also happen to be our biggest bam files. Over 20GB in size. I've g…
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Hello,
Would it be possible to get support for using an input bam file. For example, both PacBio and ONT produce data in unaligned bam format. Thank you.
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Hi Yuntian,
Thank you for developing this excellent tool! We are currently exploring the possibility of combining the LongcellPre pipeline with SCOTCH (https://github.com/WGLab/SCOTCH?tab=readme-ov…
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hi,
I am using the genotype_sv function of V2.7.x, my bamlist is shown in the picture, but it will report an error, is my bamlist format wrong? When I use "--sam" to give a separate bam file progra…
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Hi,
thank you for this great tool.
I am running spacemake for an openST data and encountering the following Error when running `spacemake run --cores 8`:
```Error
KeyError in line 286 of /ho…
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I resolved my earlier issue with the reference never building by getting an M1 Macbook Pro. But now that I've been able to build the reference, the BAMs themselves wont process.
When using the GUI,…
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Hello, I was wondering why does QUAST store at the same time the sam, bam and sorted.bam? It takes a huge lot of disk space. I tried the option --space-efficient but it still writes to the disk a sam,…
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Unpublish one of the two from the following table.
| objectId | Removed| studyId | analysisId | fileName | …
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