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I think it would be useful to have a concatenated core genome from the output of motulizer. Do you happen to have a pipeline that creates something like that handy?
Best, Carl.
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### Description of the bug
When I use my custom reference, error always show: This path is not available within annotation-cache. Please check https://annotation-cache.github.io/ to create a request …
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Dear
I met with such error:
[Fri Sep 20 17:27:52 2024] Enqueueing pair 2238009/2240249 (99.9%). Est. time left: 00:00:34 (hh:mm:ss)
[Fri Sep 20 17:28:47 2024] 2240249/2240249 (100%) pairs align…
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Greetings I'm running a syteny analysis on multiple genomes.
#Context: I'm studying the overall synteny among multiple assemblies of a eukaryotic organism, First I took 1 assembly of each species an…
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### Description of feature
https://github.com/nf-core/genomeannotator/tree/dev/modules/local/augustus
Secondary option for eukaryote genome mode (low priority to implement)
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Hi!
Thank you for this amazing tool! I'm really impressed at how fast it complete the task :) I built a pangenome with 150 Vibrio parahaemolyticus isolates, but was confused about interpreting diff…
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### Description of the bug
Hello,
I am having trouble with the sample input file. I have .csv file with correct file names and format as described in the pipeline page (also attached here). I get …
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Dear
I met with such errors when I run Braker3.
ERROR in file /opt/BRAKER/scripts/braker.pl at line 6172
Failed to execute: /usr/bin//etraining --species=Carberry2 --AUGUSTUS_CONFIG_PATH=/home/AA…
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Hi
When I run the core_genome command i got the following error
> core
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### Description of the bug
How can I use a custom snpeff reference database, such as candida.auris, in Sarek. This snpeff reference did not included in Sarek. I tried --snpeff_cache, but not work.
C…