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- [x] Show the sequence logo for the selected motif.
- [ ] Make sure the images can be exported -- see #9
Options:
1. Copy all the image files from the [Aerts Lab motif collections](https://mot…
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Hi,
I am trying to run AMRFinderPlus on a set of phage genomes to annotate the AMR genes. I have the nucleotide FASTA file, and the protein FASTA and GFF files predicted generated using prodigal. …
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Can we add the primers for SSR and RFLP markers to the records in GlycineMine? Example Satt430 does not present the primer sequences just the motif. This might also be a datastore issue? @adf-ncgr @S…
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Hello!
I'm using modkit for a bacterial (epi)genomics project. I have a large, GC-rich bacterial genome with several methyltransferases which may or may not be expressed under culture conditions. …
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Thanks for your great tool!
I encountered a problem when using a reference genome fasta file with lower-case alphabet: Although motifs were identified by STREME, no motifs were listed in the final …
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I aligned ~3k of the RdRP domain RNA virus. The output is like the following
```
>1
...................................................................................V--------.....................…
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Hi,
I ran trgt on version 1.0 trgt annotation https://github.com/PacificBiosciences/trgt/issues/37#issuecomment-2274126461_ and one of the complex TR:
> chr19 53958673 53959528 ID=…
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Hi Art,
I was wondering if I could concatenate all my pileups and pass there resulting bed file to `find-motifs`? My logic here is that my samples have different coverage and by concatenating I am …
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Thank you for adding functionality for calling seqlets, this is really useful. I encountered a few issues when experimenting with the new functions.
With `tfmodisco_seqlets`:
1) When setting `flan…
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Hi,
Thank you very much for developing this tool！
I find some regions motif edit distance is too large:
`chr1 7105232 7105273 GAGCTGG,GAGCCAA,GGGCTGG,GAGCTGC,GAGCTCT,GAGCTG`
"GAGCTGG","GAGCCAA"…