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I am not sure this behaviour is by design, but GAG currently ejects UTR features into the file genome.ignored.gff , resulting in the final annotation genome.gff to have no UTR annotations either. This…
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@danielhhaft we've been reviewing [Identification of 76 novel B1 metallo-β-lactamases through large-scale screening of genomic and metagenomic data](https://pubmed.ncbi.nlm.nih.gov/29020980/). The aut…
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The crash in the proteome comparison tool at the tutorial this week was a result of feature fig|1945512.3.peg.14 not having a translation. That feature derived from the genbank file https://www.ncbi.n…
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Hello,
I I am running the pre-ma.bf script like so:
hyphy hyphy-analyses/codon-msa/pre-msa.bf --input combined_seq.fasta
I am running on a large memory node (1.5 Tb Memory) and get the followin…
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I need to annotate some indels for chromosome 22, and then scale this step to the full human genome. I'm running vep locally using snakemake in a HPC environment with 75Gb of RAM. The input file has ~…
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Hi,
I've added a `bin/go-post-compile` file as written in the docs [here](https://github.com/heroku/heroku-buildpack-go#prepost-compile-hooks)
When I try and run a deploy, i get the following erro…
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In order to use VEP, I made an AUGUSTUS GFF annotation file. Here you can see the GFF structure for the first gene:
```
SuperScaffold AUGUSTUS gene 1 5061 0.02 - . …
eprdz updated
10 months ago
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Hi,
First, i deeply appreciate you for the powerful tool. But, I found many dots existed in amino acid sequences when I used the liftoff. Is It mean that a pseudo-genes ?
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I am unable to build a database that contains /pseudo genes, although the `prokka-genbank_to_fasta_db` function has a pseudo gene option
`--pseudo! Include /pseudo `
I am calling
`prokka-g…