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Now that https://github.com/tskit-dev/tskit/issues/852 has been fixed, I suppose SLiM ought to convert the pedigree info it has into the corresponding tskit info. I have the impression that pyslim do…
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**Version info**
- bcbio version (`bcbio_nextgen.py --version`): 1.2.6
- OS name and version (`lsb_release -ds`): Ubuntu 18.04.3 LTS
**To Reproduce**
Exact bcbio command you have used:
```
bcb…
djb17 updated
3 years ago
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Am getting the following error when running `annotate` on my isolates. The same problem occurs even when providing pre-processed results using `--antismash` and `--eggnog` flags.
```funannotate an…
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**Are you using the latest release?**
If you are not using the latest release of funannotate, please upgrade, if bug persists then report here.
**Describe the bug**
A clear and concise descriptio…
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Hi Kevin,
I had exactly the same problem as #15 , but I don't really understand what "reducing the number of threads" means. (I only used 4 cores.) Can you elaborate on that? Or it there another wa…
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In the [tutorial documentation](https://funannotate.readthedocs.io/en/latest/tutorials.html#non-fungal-genomes-higher-eukaryotes) for higher eukaryotes there are a few suggestions about additional par…
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And if so, correct it.
http://genome.ucsc.edu/blog/the-ucsc-genome-browser-coordinate-counting-systems/
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This is a random thing I stumbled on using minion cram data
There is something weird going on here where the SNPCoverage track is populated but the PileupTrack is not, and apparently for the CRAM t…
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**Are you using the latest release?**
Yes
If you are not using the latest release of funannotate, please upgrade, if bug persists then report here.
**Describe the bug**
A clear and concise descr…
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Hello,
I am testing VT and getting through the STAR alignment stages fine but running into what appear to be issues with doPar parallelizing R filtration of the 'viral bams'. As context, I only al…