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hey @njdbickhart !
I am getting the following error when I run the complete pipeline-
`Traceback (most recent call last):
File "/bucket/BourguignonU/Jigs_backup/rotation_data/sasha_unit/virus-b…
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Hi,
I looked through the suggestions and tried using --meta parameter as well as --asm-coverage, but somehow no assembly is getting formed. I have raw metagenomic data from oxford nanopore. I am gett…
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Do you need to create databases or is there a better option?
I created a database for copepods:
```
makeblastdb -in ../blastpacope/genomas_copepods/ncbi_dataset/data/db_all_copepods.fna -dbtype…
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hi jiarong,
This new version looks really exciting (recommended to me by matt), and i have been able to run the test dataset to finish. i used the new conda install that you suggested in the other…
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To better evaluate read hits to the reference genomes, we need to have a quality, consistent annotation of those genomes, to see where the reads are hitting, and whether they are significant.
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Hi Carol,
I managed to run multiPhATE2 for the test fasta files which was there in the file eg Eb_P2 and Eb_Wphi.
However in PipelineOutput file i get results like below but no annotations are p…
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Hi jmeppley. If I have a long assembled fasta file without summary file, but I want to get the k-mer bins like your pipeline, what should I do? Would it work if I creat a virtual sequencing summary fi…
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Hi, I am running Canu(V2.2) on my Ubuntu system with the following command with my nanopore sequenced meta-virus DNA(concentrated from the environment):
`nohup canu -p market -d . genomeSize=40k -nan…
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Hello,
I am wondering whether or not VIBRANT trims any non-prophage sequences, such as phage contigs with DTRs on both ends (signifying a likely-complete viral genome, for example).
I'm thinking …
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Hi there,
I have some viral metagenomic bins that I've noticed have a large amount of overlap between each other. I was wondering if it was suitable to use minimap to merge these contigs together, …