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insoedinglab/spacepharer (press backspace or delete to remove)Hi,
I m encountering an issue while attempting to run the command:
spacepharer easy-predict spacers/*.fna targetSetDB predictions.tsv temp/
I have approximately 35,000 FASTA files containing spacers, ...
aziele
- 2
- Opened on May 6, 2024
- #14
I want to predict the phage-host using the SPacePHARER a tool developed by your team. I have metatranscriptome data and
want to screen the bacteriophages. My question is what will be the .fas file (spacepharer ...
pankaj209h
- 1
- Opened on Feb 24, 2024
- #13
Dear authors/developers,
Please find the relevant information for my issue below. Please do not hesitate to ask for more informaiton.
Looking forward to hearing from you.
Expected Behavior
Non-empty ...
shaman-narayanasamy
- 2
- Opened on Feb 23, 2024
- #12
Hello, spacepharer is a wonderful software and help me a lot in my work. However, I have one quention of spacepharer. I
want to know the threshold of combined score to recognize a true host-virus interaction. ...
quliping
- Opened on Nov 30, 2022
- #11
Hello, spacepharer is a wonderful software and help me a lot in my work. However, I have one quention of spacepharer. I
want to know the threshold of combined score to recognize a true host-virus interaction. ...
- Opened on Nov 30, 2022
- #10
Hi @RuoshiZhang,
I successfully ran spacepharer, so thank you for the earlier input. I now have a question regarding what is a potential
cutoff or how one could interpret the scores in the predictions.csv ...
susheelbhanu
- 2
- Opened on Nov 4, 2022
- #9
Expected Behavior
Current Behavior
Error: predictmatch failed
Steps to Reproduce (for bugs)
Running spacepharer as follows:
mkdir -p /work/projects/nomis/assemblies/virome_results/tmp/spacepharer/GFS_7449 ...
- 17
- Opened on Sep 3, 2022
- #8
Hi there,
I was trying to run a single phage genome through the GoogleColab notebook and it always fails at the Krona step. The
input is a single genome in a single contig and I select the Phage genome ...
xvazquezc
- 2
- Opened on Sep 29, 2021
- #7
I ve installed the latest version available in conda but running into an error here:
$ spacepharer downloaddb GenBank_phage_2018_09 querySetDB tmpFolder
Create directory tmpFolder downloaddb GenBank_phage_2018_09 ...
snayfach
- 5
- Opened on Apr 20, 2021
- #6
Context
Hey there! I tried to create the QueryDB in three different ways, none of it worked. Creating the TargetDB did work
though. Preferably, I would like to be able to use my own Spacers. I do have ...
almutwerner
- 9
- Opened on Apr 16, 2021
- #5
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