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Hi,
I tried to assemble a metagenome from simplified microbial community with canu v1.7 on a slurm cluster :
`canu -p canu-contig2 -d canu-metagenome2 genomeSize=0.4m corOutCoverage=all corMhapS…
jaube updated
6 years ago
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Hi,
I wondered if you had tried to test it using metagenomic data from the environment.
The main issue may be the estimation of genome size but I wondered how it will affect the next steps of the pi…
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Hey @charlesreid1 and @brooksph , is this an accurate figure for the assembly workflow? This figure assumes that we’re using the MetaQUAST capability within QUAST and not using PANDAseq, and those ass…
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Running Shovill in Linux server, the following error occurred.
```
[spades] 0:10:33.510 17G / 18G ERROR General (kmer_splitters.hpp : 145) I/O error! Incomplete w…
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Hi All,
I use Prokka to annotate my metagenome assembly, and it keeps stopping at the tbl2asn step, I tried to split the file into smaller ones, like 400 Mb, the problem still goes on.
Could anyon…
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Hello,
I'm interested in performing a hybrid assembly with Illumina and Oxford Nanopore data of an environmental metagenome. Is this currently supported in hybridspades or metaspades? Could you use…
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I have a set of high accuracy ccs reads (>99% predicted accuracy) from a pacbio metagenome experiment. I would like to assemble these reads, with the goal of getting high accuracy protein translatio…
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Hi,
I would like to assemble in one big co-assembly multiples PE files from viral metagenomes
I have a total of 18 libraries (36 files total since it's PE) in fastq format (162Gb total)
That …
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Hello,
I would like to run metaSPAdes on an ancient metagenome data set for which the reads were simultaneously quality trimmed, filtered, and merged. We don't include the un-merged read pairs in …
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My job (89f13d9f-beed-4e60-8b98-88190a0db378) says it completed, but when I click on it, I get a workspace object not found. When I look at the error report from the job page, it says:
Bio::P3::Work…