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Running ```./canu/Linux-amd64/bin/canu -p metagenome -d /scratch/metagenome_folder genomeSize=1g -nanopore-raw metagenome_folder/metagenome.fastq```, I'm getting a Error 7 as follows:
```-- Startin…
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**Submitting author:** @bovee (Roderick Boveee)
**Repository:** https://github.com/onecodex/finch-rs
**Version:** v0.1.2
**Editor:** @biorelated
**Reviewer:** @HadrienG
**Author instructions**
Than…
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Hey,nice to meet you!
In your code, there is some code to create lsh like:
lsh = MinHashLSH(threshold=0.91, num_perm=128, storage_config={
'type': 'redis',
'redis': {'host':…
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`set1 = set(['minhash', 'is', 'a', 'probabilistic', 'data', 'structure', 'for',
'estimating', 'the', 'similarity', 'between', 'datasets'])`
`m1 = MinHash(num_perm=128)`
`for d in set1…
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Split into testing and training using sorted.fa file and succeeded.
python ~/Denovo35/vica/vica/vica_cli.py split -i /global/projectb/scratch/qpzhang/ViCA/sorted.fa --out /global/projectb/scratch/q…
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Hello,
Unfortunately, `bt build` does not work currently. Apparently, dynamic casting of a `BF*` to an `SBF*` fails. I tried to find error sources, but was unable to narrow it down.
Maybe it is …
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Hello, I am trying to use Canu to assembly a plant genome of 1.5 GB the command that I am using is
```
$canu -d ensamble_tic23_pacbio -p datura_tic23 genomeSize=1.5g gridOptions="--time=80:00:00 …
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On "real read" data sets (shewanella and podar) I have seen that fewer than 100% of the k-mers in the reads are contained in the cDBG (see for example https://github.com/spacegraphcats/spacegraphcats/…
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this would facilitate debugging and search parameter user choice.
note that there is no reason we cannot have multiple different ksize/scaled minhashes.db - we just need to work out the naming sche…
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In most cases, mvicuna duplicate removal is only called on a single sequencing library, because much of the time that we run `taxon_filter.py deplete_human`, it is only being called on a single librar…