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Is there a way to use sourmash to compare the presence/absence of species from multiple metagenomes? I would like to use “whats in my metagenome” from [this tutorial](https://sourmash.readthedocs.io/e…
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This was on my mind back to this point in time. But I never had the bandwidth to fit it in amongst the other things in my life.
Needs triage and revisit scheduled.
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Not sure what this error means:
Stage 2: 56%terminate called after throwing an instance of 'CThreadCancellationException'
Command terminated by signal 6
Command being timed: "/usr/local/bin/kmc …
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Hi Simon,
Firstly, thank you for this tool - it has been of great use in a viral identification pipeline. I had a question about the virome decontamination setting for the CyVerse implementation o…
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Hi Ben,
I used appraise to assess the number of MAGs recovered from my metagenomes. For certain metagenomes, the number binned >> than the actual number of MAGs recovered from that particular domai…
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Currently we can get number of metagenomic reads the mapping software took into consideration the following way by parsing the logs:
``` bash
for i in `ls *bowtie.log`
do
echo -n "$i" | awk …
meren updated
6 years ago
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There were a few errors that happened during `genome-grist` run of Marine metagenomes:
`less ~/assloss/grist/marine21/jobs/grist.j56313129.err`
- SRR9178284, error in rule`samtools_count_wc`, `bam_t…
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if we find suspected contamination, it would be interesting to ask --
* does this contamination correlate in any way with the rest of the genome content, across all available metagenomes? this is i…
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Provide hyperlink to same biosample/SRA record for metagenomes/metatranscriptomes
Priority - High
Urgency - High
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We have previously discussed adding metagenomics compatibility by running fly in meta mode and doing genome binning.