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Hello,
I am trying to run the tool on a multiple sample VCF with over 200 samples. However, I am keep getting no output. Please see my command and log
`./sceVCF test.vcf.gz -f LAD -o out -d 5…
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Hi Chenhao,
we discovered an issue with the contamination pipeline from this repo. Shortly, BWA default seed (k=19) allows 'random' alignments of bacterial reads against the human genome. This issu…
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Hi
Thanks for the great tool. I am currently looking into plant metagenomic data - so host contamination/complexity - so I wasn wondering if COMEBin been assessed on how it perform with eukaryotic…
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I have been feeding a few sequences through Llama2 (see https://colab.research.google.com/drive/1zCXJ4bGvihcDvWvrAUkTMYkmoLuvkcU3#scrollTo=50WdKemvxRaa) and got a little confused, because it seems lik…
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The repo mentions that the dataset is composed of only these languages: en, de, fr, and es. Is there any possibility of contamination with other languages in the dataset? I would greatly appreciate yo…
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The current QC parameters combined with Kraken gives a good indication of inter-species contaimination, but the only indication we get on intra-species contamination is more or less a high value for m…
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https://dev.impactu.colav.co/search/works?max=10&page=1&sort=citations-&keywords="Effect+of+cadmium+contamination+on+the+rhizosphere+bacterial+diversity+of+Echinocactus+platyacanthus"
![image](http…
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Hello George,
Thanks for this nice piece of software.
I have to assemble the genome of a single symbiotic bacterium from bivalve gills. Symbiont DNA prevails, but there's also some minor share of ot…
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Just a comment about compute_isi_violations from Hill (qualitymetrics/misc_metrics.py l. 240)
It is write that :
"You can interpret an ISI violations ratio value of 0.5 as meaning that contamina…