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## Expected Behavior
- indexdb command should process RNA sequences and report k-mers of size 15
- a search with a RNA sequence on this database should finish gracefully
## Current Behavior
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**Is your feature request related to a problem? Please describe.**
MSF relies on the order of the protein sequences in the faa files to identify systems. However, sometimes the proteins files downloa…
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Hello,
I tried to extract the coding proteins FASTA from gtf file but the output looks like the following;
command used: gffread -y output_protein.fasta -g genome.fasta transcripts.gff3
output;
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The gene alignment step can take a long time to complete. Is it possible to add functionality to output the unaligned gene sequences to later align batches of them across a computing cluster? The pira…
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Hello,
I read the your paper published on Nature Coummunication recently and you mentioned that the script getElementClassifications.R (https://github.com/clb21565/mobileOGdb/blob/main/scripts/getE…
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First and foremost, I would like to thank you for developing the fantastic DIA-NN tool.
I am currently working on a project where I aim to distinguish and quantify isoforms produced by alternative …
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Hi!
I am trying to annotate a mammalian genome about 2.7Gb in size, I used BRAKER, GeneMarkS-T and TSEBRA "long_reads" branch. I want to use this to play the role of Iso-seq data. The configuration …
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* **PTHR ID & PTN node:**
S. pombe has 8 amino acid transporter family members annotated to gamma-aminobutyric acid transmembrane transporter
which seems unlikely. (especially since by most metho…
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__Terms:__
I've annotated each link using the following terms below. I've provided explanations for what I mean by each term.
[Formatting Issues] Usually an issue with bullet or numbered lists
[M…
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Dear nextstrain team,
First, thank you for your work!
We recently updatated our nextclade sars-cov-2 classic dataset (from 2024-06-13T23:42:47Z to 2024-07-17T12:57:03Z).
however, our last seque…