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I keep seeing the presence of an unknown taxa with the name "V1" anytime I construct my taxa bar plots. However there is nothing in my taxanomy.tsv file that traces back to this "V1" taxa and it seems…
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Hello,
I am trying to bin my MAGs for my metagenomic samples. I am trying to use Metabat2, but it says that I have 0 bins when there are over 1million contigs in a sample, and many are over 1500 bp. …
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What types of data visualizations would be useful for the analysis or interpretation of your microbial ecology or metabarcoding datasets? We want ideas for data visualizations that would be useful for…
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iHMP? or something else?
it'd be nice if it had a specific set of genome(s)... could do the hu et al one
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Use cases:
- Storage (long-term)
- Storage (short-term)
- Streaming
- Random access
- By class
- By genomic range
Metrics:
- Compression ratio
- Compression speed
- Decompression speed…
voges updated
3 years ago
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The original Illumina FastQ format used /1 and /2 to indicate paired reads. Starting around 6-12 months ago with the introduction of casava 1.8, the pair identifiers changed so they are separated from…
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> Taxonomic assignment is the core of targeted metagenomics approaches that aims to assign sequencing reads to their corresponding taxonomy. Sequence similarity searching and machine learning (ML) are…
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This issue can serve as a placeholder for use cases for sourmash/MinHash more generally.
Stuff we already have implemented:
* basic MinHash comparisons etc
* metagenome taxonomy breakdown
* st…
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### What is the title of the roadmap you are submitting?
Roadmap to Bioinformatics
### Roadmap Link
# Bioinformatics Roadmap
**0. Why Bioinformatics?**
- **What is Bioinformatics?** Bioinfo…
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build-request
https://github.com/biobakery/humann