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Hi I hope you are well. I am trying to run sprayandpray on a couple of MAGs to decontaminate them.
i have installed the program very well and i have the nr.dmnd file however, i recieve this error wh…
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Now, I am comparing several genomes using their GFF3 files. To generate a GFF3 file, I ran DFAST-core with the genome sequence of CP003989.2 (Thioalkalivibrio nitratireducens DSM 14787) as an input fi…
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Hi!
Thanks a lot for developing this useful tool! I am currently trying to run it on a set of ~2,000 viral genomes.
I followed the GitHub instructions and:
- I also added prodigal to the path (…
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Hi Everyone,
I am a beginner on metagenome binning.
Following the instructions, I am preparing my own R data sets.
In the file "rRNA.sh", the "16S.fa" could be generated, however the generation…
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stt.wiki
- [ ] parse stt.wiki mission mini-map
- [ ] populate all missions on stt.wiki with mini-map (wow)
- [ ] export mini-map data
process
- [ ] implement mission step by step simulation to …
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Hello , I ran METABOLIC-C under a HPC with slurm over my acquatic metagenomic paired end reads data set (93 samples).The program was installed via mamba:
`mamba install -c hcc metabolic`
I ra…
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Hi,
I ran the following command and encountered an error.
perl /home/opt/shotmap/scripts/shotmap.pl -i shotmap_input/ -d shotmap -o shotmap_output/ --nprocs 20 --class-score=35 --postrare-samps=69423…
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Hello，I have encountered an issue when running AlleleCall to the genomes. It said "AttributeError: 'NoneType' object has no attribute 'seq'", what's the matter, thank you!
$ chewBBACA.py AlleleCall…
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egrep "COG[0-9]{4}" PROKKA_${date}.gff | cut -f9 | cut -f1,5 -d ';'| sed 's/ID=//g'| sed 's/;dbxref=COG:/\t/g' | grep COG
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Would be great to have an option that allows to add annotations from custom dna sequences (eg. multifasta with sRNA). Like the --protein option, --dna option could be added. Ideally the user could se…