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## Short description of the problem
When users zoom into a region of genomic context that does not include the actual stop codon of an ORF, anvi-inspect will put a STP codon at the farthest downstr…
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Hi, can you answer to these questions? It will be of great help for me.
In $DESMAN/complete_example directory, there is a file named EColi_core_ident95.txt.
How can I obtain this kind of data for …
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I'm building a database that I use with MetaEuk and I have taxonomy information but I'm not sure the correct formatting to use. Also, can there be missing fields to use the taxonomy feature? I have f…
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Hi all,
I am writing to ask your thoughts about how to deal with transdecoder output with strings of N's in the CDS fasta, that get turned into strings of X's for the longest_orfs.pep that we use a…
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Hi!
I am trying to use Platon 1.6 installed with BioConda to identify plasmid contigs. By running the following command:
platon contigs.fasta --db ~/Databases/db --output platon_accu --mode accura…
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Why does a transcript sequence assembled by Trinity.fasta have many stop codons in the middle?
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Dear Minos/Mikado developers,
I am trying to use Minos to improve a Braker-derived gene annotation; however, I am having trouble building the Singularity image of Mikado.
```
(base) [jmarteloss…
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### Description
What does ORFS / OpenROAD want me to do here?
```
[NesterovSolve] Iter: 410 overflow: 0.198856 HPWL: 39454131571
[NesterovSolve] Iter: 420 overflow: 0.191851 HPWL: 41732136463
[…
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There are so many different parameters when I run the flow of ORFS in different circuit, and different setting leads to different resulte. How do you set the parameters in you database in ORFS's confi…
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I found that the file of all HHyeast hits (HHpry_hits_171010) hd nothing from a particular ORF in it. Also that ORF is shown by HHyeast as "does not exist" Yet I have the file which was made by HHyeas…