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I'm having trouble changing the ulimit -Hn. I already changed it to 188456 files but when I run it again, it asks to change it to 188456 again and it was already changed.
CODE
(orthofinder) fcasais@…
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Review existing tools in the pipeline if they can take in Nanopore data. If not, find a suitable alternative for long reads.
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Hi,
I'm wondering where `gtdb_ver95_alllca_taxid.csv.tar.gz` is coming from? Have you written it by yourself or downloaded it somewhere? I'm using your pipeline to analyze the microbiome of Austral…
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Email from Yu Wan:
```
3. Would it be possible to make Prokka to take an option for the NCBI template file?
```
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Dear SOCFinder team,
First of all, thanks for such nice pipeline!
I would love trying this pipeline on multiple genomes to compare their cooperative genes (multiple genomes within the same genus).…
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Hi!
The gbk file made by prokka is incompatible with Biopython. When I load it into Biopython, it shows
"UnicodeDecodeError: 'gbk' codec can't decode byte 0x88 in position 74: illegal multibyte seq…
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Hi team 👋
Thanks for the wonderful tool!
I am exploring a use-case for DVC along with other tools which I rely upon in my projects and was wondering whether there's a way to customize the tempo…
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Hi
I have about 740 gff files that I produce through prokka. I copied them all into a new folder and run the following roary command, but it only give me 630 isolates results and the other files wer…
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I am using roary and a exception appear several times during the execution:
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Could not read file 'pan_genome_sequences/rplK.fa.aln': …
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I tried to install and run TemPhD on a linux server with the following sepcifications:
- Python version 3.11.7
- Perl version 5.38.2
- blastn version 2.15.0
- glimmer version 3.02
- prokka versio…