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Hi all,
I am getting an error that I have seen described online several times but date back to several years ago. I wanted to reopen this issue to see if there is any other documented fixes to this…
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@MareikeJaniak I noticed that there is just one step change here (rnammer to inferanal_transcriptome) - is it ok to just replace the same in schema? Or do I need to revisit the debug log in case the d…
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I am running rnahmmer as a final step in functionally annotating my de-novo trinity transcript. I followed the tutorial to install rnahmmer and how it requires hmmer v2. Changed the path in rnahmmer e…
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Hi @jerowe and @lecorguille,
I got the below error running Trinotate:
```
CMD: /mnt/apps/miniconda2/bin/util/superScaffoldGenerator.pl ../trinotate/smsk_trinotate.bak/Trinty_PE_all_Assembled_Transc…
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It's only for rnammer and is a PITA to install ... it has 10s of dependencies.
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Hi Torsten. We met a few times during my time at La Trobe a few years back. I'm now at [Plant and Food Research](https://www.plantandfood.co.nz/). We are interested in an open-source alternative to [r…
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Hi Torsten,
I noticed Barrnap doesn't annotate well rRNA. My genomes have an intergenic spacer region of 150 bp in 23S rRNA and PROKKA annotates different CDS in that region. For that reason, no 23…
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I think we should reduce the number of rules, either by:
- Dropping unused or redundant rules
- Merging relevant rules into one package
These are the rules that are currently available:
| Rules …
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Hi,
I'm trying to use trinotate using data from gene prediction produced by Braker2.0 (augustus).
Thank to your help I managed to go through the first step of Transdecoder (https://github.com/Tra…
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RNAmmer is able to annotate rRNA genes containing gaps of Ns. Is this a feature that you would want to implement in Barrnap? See below for an example:
``` fasta
>rRNA_205522_53445-53560_DIR- /molecul…