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### Description of feature
Apparently this is a thing now (e.g. 10x spatial transcriptomics + mixcr, e.g. in [this paper](https://www.sciencedirect.com/science/article/pii/S1074761322000814?via%3Dihu…
grst updated
2 months ago
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Hi there,
I am curious whether PlaScope can work based on sequences assembled by other software, such as soapdenovo, unicycler? Or just can work based on SPAdes ?
**And also,** can PlaScope work b…
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UMIs are mostly used to track single molecules and enables us to distinguish them amongst the different reads we got from an experiment. With them, we are able to not mark as duplicates identical read…
Poshi updated
5 months ago
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Hello,
Is it possible to use LUMPY-SV on single-end reads aligned with bwa-aln? Is it possible to use it only with read-depth information?
I read in a reply to an issue (110; resolved) that LUMP…
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Dear dev,
I am trying to use BOSS-RUN with a barcoded run (simulated) and I am struggling with the .toml file config. the readfish.toml looks like that :
```
[barcodes.barcode01]
name = "barc…
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Got the installation to work and sample seem to be loaded properly and processing starts but then i get the following:
```
[M::bam2fq_mainloop] discarded 0 singletons
[M::bam2fq_mainloop] proce…
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As a TL I would to check the report consistency, identify and flag inconsistencies so that we can improve confidence in the report.
**Acceptance Criteria**
- [ ] Identify report rows where the m…
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Hi,
it probably does not cause an issue in your particular setup but would there be a sequencing error (insertion) in your sample read there you would want to skip the erroneous insertion. Or likew…
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One genotyping vendor types HLA using RT PCR / Taqman approach. It seems similar to SSP, and that can work in this case, but if there are future HML versions maybe we discuss if this is needed.
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For the hybrid assembly track, the goal is to generate a complete assembly where all the contigs have the tag `circular=true` (given that this is biologically true). However, this is not always so eas…