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Hi,
I have used GeneMark-ES to predict the genes, and it only output a .gtf result. As follow, how can I convert this format to gff3 that EVM could recogized? Is there an script can do this?
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On desktop there is the workflow to perform a name index
On web we could add a similar thing, and maybe just make an entire name index in memory instead of creating an "on-disk trix index"
F…
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**Is your feature request related to a problem? Please describe.**
The default GFF3 created by Prodigal uses names like `22_1` for the gene ID instead of the actual protein/cds files created that use…
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New CHM13 genome provides only `*.gff3.gz` files for genes annotations, see https://github.com/marbl/CHM13#v11. So we cannot configure genes markup for new genome in JBR
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I am 97% sure this is out of scope for sssom-py and this should be either it's own tool or something as part of a general gff package. But this seems like a good place to seed the idea.
GFF allows …
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The list of features (genes, etc.) is saved in GFF3 (a tab-delimited txt) file format. Will it be possible for the ETL process to those GFF3 files directly? We can explain the fields if needed. Having…
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```
Parameters: -genome Zlat.fasta -intact Zlat.fasta.pass.list -all Zlat.fasta.out
-t 60 -q -blast /public/home/cszx_huangxh/biosoftwares/Anaconda3_8/envs/gene_ann
o/bin/
2024年 08月 26日 星期一 21:25…
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### Ask away!
In your GitHub instructions ( https://github.com/epi2me-labs/wf-transcriptomes ) you wrote that for the ref_annotation file "A reference annotation in GFF2 or GFF3 format (extensions .g…
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In annotations (gff3) files, what should we do about genes missing the Note attribute? The InterMine build process expects this attribute to exist.
Workaround for experimental ViciaMine: I added ";…
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Hi all!
I am trying to combine the files below:
1. `masked.A.gff` from **directly runing AUGUSTUS with genome file** and converting by `augustus_GFF3_to_EVM_GFF3.pl`;
2. `augustus.hints.B.gtf` fr…
wu116 updated
12 months ago