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Hi,
Thanks for this pipeline! I am running it and having trouble with the predict_metagenomes.py step. When I the normal predict_traits.py command you recommend and then add the KEGG I get the fo…
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Script would go in `inst/scripts` and be run as external shell command (e.g. `system`) from a new unit test, creating an implicit Suggests-type testing dependency on the availability of an up-to-date …
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Hello ! When trying to run the test `mini_config.ini`, i encountered this error (already mentioned but there was no follow-up):
```
/mnt/software/bioinfo/samtools-1.9/samtools: error while loading s…
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It'd be great to add support for input that can be one of several controlled values, like optparse's `choice` type. For some concrete usage examples, take a look at biom-format's `biom convert` comman…
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This is because phinch throws an error on "metadata":null and locks up on the loading screen.
I'm not sure whether this is a mothur problem or a phinch problem, but here is a gnu solution that worked…
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Hi @mortonjt
What format should I enter if I want to analyze SCFAs data in qiime? I tried to convert the form to biom and then to qza and encountered the following error
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As referees of our f1000 article note:
> The API provided by BioJS is minimal. Notably, methods for partitioning, collapsing, transforming, filtering and subsampling are not present. While develope…
iimog updated
7 years ago
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Hey,
I used kraken to get the taxonomic abbundance estimations for my shotgun data. The output I get from kraken contains both counts and taxonomy. This format is however not supported to set up an…
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I am having a problem with running the BiG-MAP analysis module. The problem seems to be related the metadata 'sample type'
Kindly assist.
#my command
python3 BiG-MAP.analyse.py --explore --compa…
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Hi Taruna
I am following your protocol and when I am in the 2nd step (pick OTUs)
In the parameter for picking OTUs you wrote
assign_taxonomy:reference_seqs_fp /home/gomre/taruna/GOM-Illumina/r…