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Hi Suhrig,
There is a sentence In the viral integration sites section of the document that says "by defining a virtual gene, all viral integration sites are reported (even integrations into interge…
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**Biosensor Recognition Elements
James P. Chambers, Bernard P. Arulanandam, Lean**
- Selective overview of molecular recognition elements, including receptors, enzymes, antibodies, nucleic acids…
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Is there any reason why you did not go with [apache arrow](https://arrow.apache.org/) format from the beginning?
It would be at least nice, if you allowed `to_arrow_table` and `from_arrow_table` co…
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Thank you for the nice package.
I am interested in using it for Pseudomonas and many other bacteria species if I figure out how.
I do not have custom transcript but there are databases from wher…
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I noticed a bug when running _svart_-graded Squirls benchmark on a VCF file.
When annotating a VCF record:
```
chr1 225725424 . CTT C,CT 258.06 FreqFilter AC=1,1;AF=0.…
ielis updated
3 years ago
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Hi,
I tried to build the `bacteria` database using
```kraken2-build --threads 24 --download-library bacteria --db /work/idoerg/db/k2bac```
Seems like the process ended midway without notifyin…
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LINX outputs a number of interesting-looking TSV files. What's the purpose of each one and how should users interpret them correctly? Can there be a section of advice for each one in the user guide? A…
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Matlab users who employ "properly" vectorized code may notice a dramatic slowdown in going to Julia because most Matlab vector operations are multithreaded while Julia operations are not. There is an…
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I think the file `[accession].darth/[accession]/[accession].vadr.pass.tbl`gives the genome structure:
E.g.
```
>Feature ERR4238643.coronaspades.NODE_1_length_29820_cluster_1_candidate_1_domain…
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Aligning pacbio reads to flu references.
@jbloom when I'm aligning the reads there seems to be some issue in my annotation because `[most reads end up not aligning](notebooks/align_pacbio.py.ipynb)…