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Most of the scripts right now are missing comments, such as the ones put in C3 Bootstrap V2 [here.](http://www.webpetz.com/creatures/updatesce.php)
Would make it easier to know what the script is d…
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Hi, the software seems very good, but I am new in metagenome analysis and I have questions about the selection of appropriate reference genomes (indexes) when using 'hostile'.
1.
I read the "Refe…
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Hi,
Your browser looks great
Could it support any Ensembl genomes for example http://fungi.ensembl.org/Schizosaccharomyces_pombe/Info/Index
Cheers,
Danny
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Hi,
I have just started using Kraken2 for a classification of metagenome reads into fungi. A previous read mapping to RefSeq (about 500 species) only identified aobut five OTUs. Kraken2 identified …
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Hi, thanks for your works!
However, when I meta-train on Meta-dataset, eval results reach plautou about 4 epoches and unexpectly low.
Here is the training command (on 4gpus):
`main.py --output x…
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toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.2.0+galaxy1
Fungi seems to be missing specifically at Jetstream (only). Roundup is an example of Ok.
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Hello,
I have been trying to create a database based on RefSeq archaea, bacteria, and fungi using the command below:
```
downloadRefSeq.pl --DB refseq --seqencesOutDirectory seqs --taxonomyOutDir…
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Using the preliminary output gleaned by scraping abstracts with the NER, create R code that helps sort, visualize, and prioritize papers to follow up on.
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We are recently decided to update our index so started from scratch (deleting old/dated index etc).
We ran centrifuge-download -o library -m -d "archaea,bacteria,viral,fungi" refseq >> seqid2taxid…
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Hi rdp staff,
I am trying to retrain RDP classifier using NCBI 16s database, however, when I looked into the example taxonomy file and the fasta file, I am a bit confused how should I even generate…