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Hi Juke,
First of all, thank you for this amazing toolkit. It has been very useful to correct and manage gft/gff files.
I tried to import the InterPro output to the gff3 file, however gave me an …
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Hi ,
Thanks for providing this resource! I want to optain protein sequences from a gff3 and a genome fasta file.
I've installed AGAT using conda and also updated. When running agat_sp_extract_sequ…
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Hi,
I'm having issues installing and running AGAT. As I only need to run one script (agat_sp_keep_longest_isoform.pl), I decided to install any dependencies as I required them. This is because I wa…
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Hi @zhxiaokang
It seems I am having a problem with the BAM step in my workflow.
I get the following output
`[Wed Jan 6 23:51:27 2021]
rule featureCount:
input: data/output/pva027/ge…
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```
agat_sp_manage_functional_annotation.pl -f Chilo3.gff3 -i Chilo.interpro2 -o Chilo4.gff3
Possible precedence issue with control flow operator at /public/home/mosta/miniconda2/lib/site_perl/5.26…
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I used agat_convert_sp_gff2gtf.pl to convert my gff3 file to gtf file but the double quotes of 'gene_id' are missing in the generated gtf file:
`ID "Bany_03723-RA:1"; Parent "Bany_03723-RA"; gene_i…
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Hi!
I have a .gff3 file I obtained as an Output off Augustus, and I am trying to apply agat_sp_statistics.pl to get some gene counts and etc out of it.
However, the program gets stuck and does n…
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Dear ,
Its my first time using the Module in Powershell but i can't seem to get it working.
I can make a connection to my PRTG server but once i try retrieving something it returns following err…
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From @manuel489
***Comments on AGAT 1st meeting Report:***
- I set `meeting-report` as doctype.
- This doc doesn't have a summary, yet the title "Summary" is still shown in the front page of the…
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When running the script on a previously sorted maker gff using `agat_sp_gxf_to_gff3.pl ` , I noticed that the output table is sort order changed back to the original gff.
I'm assuming it's sorted u…