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The reason why I'm asking is because VirFinder, geNomad, VirSorter(2), etc. operate on individual contigs then those results are usually fed into CheckV to determine how complete/contaminated the viru…
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Hello, cytham
Thanks for providing such a nice tool. I encounted a error when I test a small sample with Nanovar 1.7.0. My commadline is "nanovar -x pacbio-ccs -f hg38 demo.sort.bam ~/ref_genome/hg…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/hyochoi/ELViS
Confirm the following by editing ea…
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Dear @alekseyzimin
I wrote a few days ago in a closed issue and I wonder if you could not read it [https://github.com/alekseyzimin/masurca/issues/47](url).
I also checked genome.scf, genome.ctg a…
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Hello，I have encountered an issue when running AlleleCall to the genomes. It said "AttributeError: 'NoneType' object has no attribute 'seq'", what's the matter, thank you!
$ chewBBACA.py AlleleCall…
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Hi
Thanks a lot for this awesome tool!
I am trying to phase an allopentaploid genome which we expect to have 4 subgenomes. Although the clustering works very well, I having trouble to adjust the s…
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- [ ] speed up addReadStats (big difference in the time between the different statistics - which ones should be calculated by default?)
- [ ] speed up filterReads (it's fine for small-ish sets of rea…
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it would seem to make sense to have the sgc queries be done on pangenomes at the species or genus level, rather than individual genomes.
we could accomplish this by grouping the gathered genome wit…
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I'm running version: v1.1.1 . This is issue is an extension of https://github.com/medema-group/bigslice/issues/66
```
(VEBA-biosynthetic_env) [jespinoz@exp-15-15 Test]$ bigslice --query test_outp…
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funannotate compare -i Cross_sp_Compare_GBK/*.gbk -o Cross_compare_results --cpus 24
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[Oct 22 10:15 AM]: OS: Ubuntu 20.04, 24 cores, ~ 231 GB R…