-
Hello, thank you for providing such a useful tool. I installed EDTA using conda, and when running the test data, I encountered the following ERROR:
`mamba create -n EDTA
conda activate EDTA
mamba…
-
Hi,
The tool says that it can work with GFF3. But it only works with GTF. Can we get GFF3 support?
![image](https://github.com/user-attachments/assets/53e82137-3291-454e-b21f-762e2639b3d6)
Er…
-
Hello,
when i use gffread to convert TE annotation .gff3 to .gtf file, my resulting .gtf turns out to be an empty file. It seems to convert successfully when i convert a gene annotation .gff3 to .g…
-
The gff-version listed by helixer is "3.2.1" I haven't been able to find a specification for that version. The only particularly well detailed specification of gff3 that I've ever found is from Sequen…
-
Hi team,
I just found this tool during my search for a tool fixing my gff file. However, error happens when I am trying to fix CDS phases. Do you have any idea how to mitigate this? Any help would …
-
I had run the genome annotation and merge them using the evm, then I want to uodate the gff3 using pasa
this was my commands "Load_Current_Gene_Annotations.dbi -c alignAssembly.config -g ../../../..…
-
Hi all again!
cc: @lpantano @gurgese @ThomasDesvignes @mhalushka @mlhack @keilbeck @BastianFromm @ivlachos @TJU-CMC
I propose to use the database used by the tool to put in the second column: *…
-
Funannotate final gff3 has only one transcript information per gene. It doesn't provide alternative splicing/isoforms in the gff file?
-
**1. What were you trying to do?**
I used `vg rna` to build a spliced pangenome and a pantranscriptome with a GFA file from PGGB and a gff3 file. Similarly, I used `vg autoindex` to build index f…
-
Hi,
I tried to run gff3_fix an ran in following error
Before I of course ran QC:
```
gff3_QC -g in.gff3 -f in.fasta -i -o QC-Check.out -s QC_Check.stats
```
Afterwards I extracted only the…