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Create phylogeny for each sample.
- [x] Create representative reference set to use as a whole genome backbone
- [x] Same for ompa gene only
- [ ] Create bed file of recombination regions to mask …
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Evaluate the possibility for populating GSA with CarbBank data. A CSV with CarbBank data can be found [here](https://github.com/ReneRanzinger/org.glycomedb.export.glygen/blob/main/export/carbbank.csv)…
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Hello,
After running lumpy_smooth on a sample bam file I got the following warning message:
Warning: only 392 elements in distribution (min: 1000)
I figured out it comes from pairend_distro.py that…
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Creating this thread to post potentially useful info about _Bacillus subtilis_ that people come across.
Quick background: _Bacillus subtilis_ is a bacterium that is widely used in industrial biotec…
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There seems to be a KP.3.1.1/KP.3.3.2 recombinant hiding in the huge recombinant island of KP.3.1.1/KP.3.3, effectively granting KP.3.3.2 additional S:S31-.
KP.3.1.1--KP.3.3.2
Breakpoint between…
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More detail is needed to explain the input alignment (`--alignment alignment.fasta`)!
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Hi Katherine,
Thank you rebar, it's working very nicely with a in-silico dataset (part of a quality assurance program in Australia).
I am getting some mixed results when I come include or exclu…
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Hello,
The vcf that is outputted by pandora gives variant positions with respect to each individual gene. Is it possible to map the position of variants with respect to the pangenome reference?
…
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Hi everyone,
I tested bracer on my single cell rna seq data. I used two approaches:
-used both paired fastq from 1 cell
The problem with this approach is that bracer recognize multiple BCR_reco…
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I received a small grant to support experimental, biochemical testing of potential targets for Series 3 (#549) through partnerships with the wonderful core labs (NMR, mass spectrometry, X-ray crystall…