decontam
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benjjneb
Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
Hello! Provided that as many negative controls as better, how many many should I plan to have? Right now, I have about 91 samples and three negatives, where the latter...
Hey Guys, Following scenario: I have 210 fecal samples from fish. When I extracted DNA I did one blank control every day i did extraction (no template, just reagents). Now...
Very excited to try out this package. I've put together a barebones qiime2 plugin to give this package a whirl some of our larger datasets: https://github.com/mortonjt/q2-decontam From what I understand...
Awesome job on `decontam`! In the discussion section, under *Choice of classification threshold" its suggested that: `Another useful visualization is a quantile-quantile plot of scores versus the uniform distribution.` Looking...
Hi all, thank you very much for writing this R package ! I was wondering whether your package can be use (and if that is possible, how it should be...
Hi ! First of all, I would like to thank you for your Decontam tool, which I am very interested in. By the way, I tested Decontam on data that...
[decontam_data.xlsx](https://github.com/benjjneb/decontam/files/6261795/decontam_data.xlsx) [01decontam.txt](https://github.com/benjjneb/decontam/files/6261796/01decontam.txt) I have used your software in my data,but get a error result.I would give you my data and code ,could you help me find out the reason? The...
Hello, this is a very nice package! Thank you. I sequenced 84 biological samples (cotton swabs) obtained from a low biomass environment and 4 negative controls (blank swabs, no DNA)...
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Thank you so much for creating this package. I'm new to R coding, and having some issues with going through the decontam process using the prevalence method. I read in...
Hi, I've previously relied on this example quite often and lose track of this link. I find it very helpful for the plotting code and rationales provided. Although I found...
