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Hej
I've noticed today that
in the SNV variant view we can see "Overlapping SVs"
in the SV variant view we can see "Overlapping SNVs"
in the MEI view we can see "Overlapping SVs" but not "Over…
4WGH updated
11 months ago
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Hello,
I want to make a giraffe index with only reference genome and without variants. I do this with codes below:
```
vg autoindex --workflow giraffe -r $ref -t $t -p ./index/index
```
And I got…
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I have a set of 4 exomes and running aldy 4.4 on them as so:
aldy genotype -g cyp2e1 -p wxs ${bam_location}/*/${sample_name}.bam -o ${output}/${sample_name}.cyp2d6.aldy -l ${output}/${sample_name}…
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Hello! I am interested in calculating aFC for genes with multiple causal variants and was pointed to this tool by Stephane Castel.
This seems like a really great extension of the aFC tool! I was cu…
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Would it be possible to add "Seed" to the tissue type drop down menu for genotyping plates? Alternatively it might be nice to add tissue_type as a configurable key option.
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Hi,
Thank you for sharing this tool with the community. After reading the manual and issues, I would like to use LongPhase for my genome projects.
FYI,
Input data: PacBio (Sequel) with ~200X c…
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Hi,
I started a new issue as I am not sure on how the short reads should be handled and others may also be interested in the answer.
1) It says that the reads should be "Paired-end reads must be…
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## Bug report
### Expected behavior and actual behavior
When running my pipeline in a normal setting (stubs for making it run quicker) using `nextflow run CenterForMedicalGeneticsGhent/nf-cmgg-…
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Is there a way (or would be difficult) to output a BAM with the reads that contributed to the SV calls, with a SAM tag that identifies which call? This is super useful for debugging calls in IGV. Fo…
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[error] SGN::Controller::AJAX::GenotypingProtocol::genotyping_protocol_delete_GET(): DBI Exception: DBD::Pg::st execute failed: ERROR: permission denied for table genotype [for Statement "DELETE from…