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Would it be possible to add an option to filter read alignments by mapQ score? This can be useful for metagenomics datasets where many similar organisms are being compared.
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Summary of request: Modify the information in an existing ROR record
Name of organization: University Hospital Federation, Paris Center for Microbiome Medicine
ROR ID: https://ror.org/00yyw0g86
W…
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Thank you for developing smetana!
I just have a general question. I'm currently building models with carveme by using the default command (`carve genome.faa`) without
specifying any media via `--gap…
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Cross reference to #672. Create ``ecosystem`` terms to represent the GOLD/EBI-mgnify ``root > Environmental > Air`` classes:
```
root > Environmental > Air
root > Environmental > Air > Indoor Air…
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Dear All,
I have a bit problem with the LESFE analysis starting from a phyloseq object.
I tried to use the LEFSE package from ying14/yingtools2: Ying's R Tools, following the exemple code.
Belo…
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Goodmorning guys,
I'm trying to perform a beta-diversity analysis with biplot, but not as the normal one like figure 1 but like in figure2 with the representation of phyla abundance among samples a…
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Dear all,
I am new in working with Phyloseq. When I was exploring and trying to apply the phyloseq tutorial exapmle created by Daniel Vaulot (https://github.com/vaulot/R_tutorials/archive/mast…
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Characterization of oral bacterial and fungal microbiome in recovered COVID-19 patients Nana Wei
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10166687/
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Hello,
Thanks for developing this tool for the community. I'm running BiG-MAP.map on some data and I had a problem getting the fastq sample names from the sample sheet to match up with the fastq pa…
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For me, the relative abundance is the proportion of a bin in all bacteria in a sample. The value of abundance should be less than 100%. But in my result ` abundance_table.tab`, there are some value mo…