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Some of the genomes in a user created genome group were deleted from the database because of bad quality, as part of data clean up.
User tried to use this genome group for constructing tree and th…
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Previously only in Japan, now spreads to other countries.
KP.3.3+G23856T(S:R765L)
GISAID query: G23856T, C28291A, G28884C
No. of seqs: 25( Japan 23 South Korea 1 Ireland 1)
First: EPI_ISL_1914…
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I'm pulling gff files in from IMG genomes. IMG has the data parsed into gff and fna files already along with some other files. I've mergred the gff and fna files into a single .gff3 file and am using …
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Hi!
Thanks so much for developing tools like inStrain and dRep, they're very user-friendly. I have some questions regarding building the representative (rep) database. Initially, I used de novo ass…
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LB.1.2.2 >C22075T (S:V171V silent ) >C23029T (S:Y489Y silent ) > S:S704L (C23673T), M:L29F (C26607T)
Query: C23673T, C26607T,C23029T
Samples: 9 ( plus one from Nevada not on Gisaid yet9
Countries:…
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Running the mRNA-seq in allelic-mapping mode when a custom reference genome is passed a YAML file (not being a registered genome by snakePipes) has issues because, during the diploid genome generation…
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Hi,
I encountered a problem when running **EpiTraceAge_Convergence** in the step 4 of the [tutorial](https://epitrace.readthedocs.io/en/latest/MSscATAC.html#step-4-epitrace-analysis). It seems to b…
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Hi, thanks for providing this useful tool.
It seems a small bug in genome position of maf
```
##maf version=1
a score=262.0
s Xenopus_tropicalis.chr5 29721 13 + 164033575 CCCCCCGTTTGTT…
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I need to run both `fcs-gx` and `fcs-adaptor` on a lot of genomes. To speed-up things, I was thinking if I could run them both in parallel (on the original genome fasta):
```bash
genome.fas.gz -> …
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P8, L14 "sacCer3 (R64-2) genome build was used". Please indicate which INSDC accession was selected, was it GCA_000146045.2 ?