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Hi there,
I met issues when trying to generate GO plots using this software.
The error messages are as below:
> cnetplot(ego, categorySize="pvalue", circular=TRUE, colorEdge=TRUE)
Error in geo…
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Hello!
my name is Natasha and I am following the tutorial on http://bioconductor.org/packages/devel/bioc/vignettes/GDCRNATools/inst/doc/GDCRNATools.html#cernas-network-analysis-of-degs
I have 2…
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I assembled denovo a Chlamydomonas genome using SRA data and annotated it using braker3
I now want to compare my denovo annotations to the reference genome
When I feed fidibus with the braker gff3…
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Hello,
Recently, I was running the GFFcompare and found some confusing results.
The query file has one single-exon transcript which is slightly different from the reference file at the boundary, and…
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HI,
I am back trying to build my local database using my own braker3_gdna, name-fixed braker3_gff3 and braker3_protein.fa.
The singularity command does not create the label folder and then compl…
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- defines the in/out index of the first sequence position
- if negative; ignore 0 from indexing
- use this information to map mutation encoding to sequence position
(similar to IntaRNA --t/qIdxPo…
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Hi,
I have a question about the true strand of assembled sequences based on strand-specific reads. Are they all the true mRNA sequences or might be their reverse complements? In other words, will t…
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Good afternoon.
I've tried running DMISO with the example data:
`python3 dmiso.py -t examples/test_mRNAs.fa -m examples/test_miRNAs.fa`
But the following error appeared:
```
Loaded model fr…
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We need to come up with some stats that we want to display for the gene_models files that are consumed.
Its pretty easy to do counts of field 3 and just report these, but should we do more?
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IPR is done with proteins. Coordinates get read in for protein, and then displayed on the mRNA.
As a result, our coordinate locations are always wrong: they span the first 1/3 of the mRNA!
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