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This ticket derives URL checking work done in https://github.com/microbiomedata/nmdc_automation/issues/186
All 79 metagenome_assembly_set records from nmdc:sty-11-547rwq94 have a different blade i…
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I am using SqueezeMeta to analyze PacBio data. The first step in SqueezeMeta is to run Canu because it is suited for PacBio data. However, I encountered an error during this step. Here are the detai…
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Hi
Can VALET be used to evaluate metagenome assemblies i.e. just a contigs file (without binning)?
Regards,
Aditya
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**Workflow Name**
Metagenome Assembly
**Project URL**
https://nmdc-edge.org/admin/project?code=brFrthQj2C3PyUvj
**Additional Info**
```
' 0:00:07.478 34M / 579M INFO General …
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Is there a current plan to include other microorganisms like fungi?
It would most probably involve other tools and databases, but at least for the assembly, spades could work, too.
Is there a wa…
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Hello,
I would very much like to use this tool for binning my Flye metagenome assemblies.
However, I ran into the following error:
```
graphmb --assembly Flye/ --outdir GraphMB --depth depths.tx…
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Data portal search should support search by NMDC identifier (slot `id`) for the Database Class slots where the Range is a Class which contains `id` as a required slot
slots:
- data_object_se…
aclum updated
2 weeks ago
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## Structured standard
After multiple different approaches i am now confident in an approach. To create a set standard, i will redo the scripts so the same analysis and structure is withheld unregard…
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## Merging reads per hostplant
As a comparative measure against population based approach, we will assemble metagenomes using all CH and CO samples separately.
```
# New directory for hostplant …
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Hi I am getting the following error:
sample1.fastq.gz is either empty or contains multiple entries with the same identifier. Please check your input FASTA file and execute genomad annotate again. …