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Dear WtP developers,
I am making a snakemake pipeline having WtP integrated. The rule of WtP is attached below:
```
rule wtp:
input:
expand("results/wtp/input/{sample}_scaffolds_gt{…
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Hi,jiarong ,
This software helps me a lot when I try to find the virus sequence in the metagenomic data. I found the viruses were classified into three categories as you described in the paper, but I…
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| Name | Description | Size | Format | URL |
| --- | --- | --- | --- | --- |
| World Bank - Light Every Night | Light Every Night - World Bank Nightime Light Data – provides open access to all night…
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Hello,
I have trying out VIBRANT lately and although I find it is superbly made, I have run into a couple of issues regarding prophage identification. As a test, I have input the whole genomes from…
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Hello,
I ran VIBRANT on ~142k fasta files that I know for sure that has a sufficient number of phage scaffolds. When the run was finished, I noticed a couple issues:
1. all the outputs from VIBR…
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Hi,
Do I understand correctly that the Prodigal output file (.../raw_data/prodigal_out/contigs_prodigal.faa) is for all positive contigs (i.e., from all tools)? Is there a way to extract only some pa…
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### **Bhalla et al. (2016). Introduction to biosensors. Essays in Biochemistry, 60(1), 1–8. Juliette 21/03/2021**
A good review to have the basis about biosensors i.e. what it is, how it works, th…
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Dear Mike,
Thank you for developing this useful tool! Could you please help me with one question about its application? The GitHub page describing Unlimited Breadsticks says “_Unlimited Breadsticks…
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_**Carpenter, Alexander, et al. “Blueprints for Biosensors: Design, Limitations, and Applications.” Genes, vol. 9, no. 8, July 2018, p. 375. DOI.org (Crossref), doi:10.3390/genes9080375.**_
The art…
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Hi,
I use the following command to run wtp with an input fasta file (~60M):
`nextflow run replikation/What_the_Phage --fasta wtp/all_combined.fasta --databases nextflow-autodownload-databases --ca…