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It would be helpful if the sequences were treated as metadata, and there was an ID associated with the sequence. The [dada2 plugin for Qiime 2 using a md5 hash(https://github.com/qiime2/q2-dada2/blob/…
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I tried running the core_diversity_analyses.py script in qiime using the deblurred sequences but it said something about I didn't have metadata in my biom file. When I added the metadata it still didn…
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deblur --version should return the current version number
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In general, the output information about what artifacts are created is very useful (and I really like clean use of colors). However, there are times when it would be nice to not have this output (e.g.…
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running deblur does not delete the split directory.
should delete it and only keep if --keep-tmp-files
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in the documentation, explain the output at the end of deblur
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Does Deblur work with amplicon types other than 16S? I have tried running it on ITS and 18S but I'm not sure it's working properly.
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Originally noted by @gregcaporaso, see wasade/q2-deblur#4. Readme states default is 150, but the default is actually 100
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Main description "Deblur is a greedy deconvolution algorithm based on Illumina Miseq/Hiseq error profiles." doesn't say anything about amplicon sequencing or 16S or 'OTU picking'.
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The deblur function computes the hamming distance between the sequences twice. Check if caching those values is worth; i.e. test the trade-off between memory usage and running time.