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Richard raised that it would be nice to add genome annotations to ENA submissions. We discussed on dev call, if we do this, we could potentially also make the annotations available from Loculus direct…
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@kelly-sovacool can you create the reference files for:
Fasta: https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/100/555/GCF_011100555.1_mCalJa1.2.pat.X/GCF_011100555.1_mCalJa1.2.pat.X_genomic.fna.gz…
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Hello VStrains team, thank you for developing such a great tool, but while using it, I faced the following problem.
I attempted to assemble the complete HIV genome from this sample: [SRR29407826](htt…
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Hello,
Is there a genome or chromosome size limit with Genmap map?
I am trying to run genmap map for a 48GBp krill genome and I am getting an error. Note that I had no issues with genmap index.…
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Hi,
I was wondering if I would like to calculate coverage across the genome for specific window size (ex. 100kb) using a BAM file, do I need to supply a reference genome file when I run PathDepth? Or…
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Allow for multiple fasta files to be specified by the user, each containing a piece of the reference genome. Memory is an important consideration in making this change, as the current implementation c…
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Hello!
Thank you very much for your contributions and your publicly available data!
I have a question regarding the 11 genomes mentioned in your article. Could you kindly let me know if it is po…
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Hi,
I would really like to make this code work, but I am getting IndexError: list index out of range at line 160. I am using python 3.10.8.
My command is:python p2c.py /nobackup/qtwh28/SnowPet/G…
Asrix updated
3 hours ago
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Hello,
I am just using PPanGGOLiN for the first time and am encountering an error:
```
Traceback (most recent call last):
File "/home/matwan/anaconda3/envs/ppanggolin/bin/ppanggolin", line 10,…
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This feature aims to enhance the current genome encoding model by integrating an **autoencoder** to compress and encode neural network weights into a latent vector. The autoencoder will replace the di…