-
Hi,
I am running PhISpy 4.2.6 on a set of contigs, one contig per PhiSpy run, and for some of them it is not able to finish the analysis. After identifying potential prophages, RAM usage scalates …
-
Hello! First allow me to say that I'm so glad you built Pyrodigal, as it's both faster and far more convenient than when I was making subprocess calls to Prodigal!
I am working on a tool aimed to …
chg60 updated
3 years ago
-
Hi ,
I get the following error 👍
`Error executing process > 'bacannot_nf:digis (Scanning for Insertion Sequences with digIS)'
See shot below:
`
![image](https://user-images.githubusercontent.…
-
### Test assembly:
[kleiner_2015.fasta.gz](https://github.com/EBI-Metagenomics/emg-virify-scripts/files/4414825/kleiner_2015.fasta.gz)
### Observation
It seems that VirSorter predicts a prophage…
-
Hi ,
I am using "coverm filter" to remove alignments with insufficient identity. The size for the input bam file is 143374586594 bytes, but the size for the output file is only 4129795 bytes. An…
-
Hi
This is a great tool, all steps work fine. However, I am not able to download the prophage sequences in fasta-format. The double-stranded DNA icon for BLAST works perfectly alright. But, the verti…
-
Nice tool and idea. Perhaps our phigaro tool could also be included (although I appreciate that adding new tools is probably not trivial):
https://academic.oup.com/bioinformatics/article/36/12/3882/5…
-
Hello,
Thank you for making this Nextflow pipeline, it's really a great resource to have!
Something I noticed when doing some preliminary work with WtP so far is that there is no user-facing opt…
-
Hi
I get following error with --output_choice 4 or --output_choice 8. I don't get bacteria.fasta, bacteria.gbk and phage.gbk. I do get phage.fasta. What could be the possible reason? All other option…
-
The idea is to be able to select which measurements are selected for classification with Random Forest. This would allow investigating the influence of each metric for prophage discovery.
Maybe th…