Non-biological synthetic spike-in controls and the AMPtk software pipeline improve mycobiome data

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@BioLumbee For ITS, I used AMPtk with no issue! Paper: https://t.co/1q8GiJgGBN Documentation: https://t.co/Vkaz7AM7le Download: https://t.co/VVSSGlmBeZ
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@e_hannula @MAnthony02 @PacBio First of all, I really appreciate both of your recommendations! I would be excited to read the paper to come out of this post. What do you both recommend for mock communities? I have been using the AMPtk/SynMock community which doesn't work with ITSx https://t.co/fIuxNTJreS
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1875 days ago
RT @MonikaSFischer: For Journal Club today we discussed AMPtk (https://t.co/BqAbMeOGN1) by @jonpalmer2013 et al. Everyone loved it and said…
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@hacheyjohn @jonpalmer2013
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@MonikaSFischer Thanks, glad it was useful! Here is fixed url https://t.co/maUGbXJIWC
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For Journal Club today we discussed AMPtk (https://t.co/BqAbMeOGN1) by @jonpalmer2013 et al. Everyone loved it and said it was a comp bio paper they actually enjoyed reading! I've said it before, but I'll say it again - anyone interested in amplicon seq: read this paper!!
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RT @MonikaSFischer: Just took a deep dive into the AMPtk paper. LOVE how they provide a comprehensive overview of the general analysis work…
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RT @MonikaSFischer: Just took a deep dive into the AMPtk paper. LOVE how they provide a comprehensive overview of the general analysis work…
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1922 days ago
RT @MonikaSFischer: Just took a deep dive into the AMPtk paper. LOVE how they provide a comprehensive overview of the general analysis work…
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1922 days ago
RT @MonikaSFischer: Just took a deep dive into the AMPtk paper. LOVE how they provide a comprehensive overview of the general analysis work…
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RT @MonikaSFischer: Just took a deep dive into the AMPtk paper. LOVE how they provide a comprehensive overview of the general analysis work…
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Just took a deep dive into the AMPtk paper. LOVE how they provide a comprehensive overview of the general analysis workflow, addressing specific pitfalls and eccentricities of Fungi. Exactly what I needed as a newbie! Amped to use AMPtk! Thank you! https://t.co/UCpL9XOW0w
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@MonikaSFischer The AmpTK pipeline is great for fungal ITS. It uses python https://t.co/fQ0SNxOpco
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@colinaverill Yeah, they're prob. more useful when standardized for cross-study & cross-run comparisons. We're gonna mix fungal strains based on Palmer. 2018 (below), but something that's QC'ed and purchasable may be better for consistency across labs. https://t.co/X1AR1CSfUa
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Non-biological synthetic spike-in controls and the AMPtk software pipeline improve mycobiome data published as: https://t.co/Ji8N9V82GU @thePeerJ #biorxiv
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@macmanes Cool. We found pretty much same result on WNS infected bats. I’d be highly skeptical of QIIME2 ability to accurately process ITS data. Full disclosure I’m the author. https://t.co/maUGbXJIWC.
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Non-biological synthetic spike-in controls and the AMPtk software pipeline improve mycobiome data https://t.co/iYOCIcKF8C https://t.co/777yxa69Za
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RT @mueller89_r: Definitely a nice read and one of the few outlining why ITS amplicons need a different approach of analysing. @jonpalmer20…
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RT @mueller89_r: Definitely a nice read and one of the few outlining why ITS amplicons need a different approach of analysing. @jonpalmer20…
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RT @mueller89_r: Definitely a nice read and one of the few outlining why ITS amplicons need a different approach of analysing. @jonpalmer20…
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2771 days ago
RT @jonpalmer2013: Improved mycobiome data processing using AMPtk and non-biological controls! @thePeerJ https://t.co/jepmbOLTcs #Biodivers…
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2771 days ago
RT @mueller89_r: Definitely a nice read and one of the few outlining why ITS amplicons need a different approach of analysing. @jonpalmer20…
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2771 days ago
RT @MAJusino: The next-generation of community sequencing is here: non-biological single-copy community controls for #HTS and the AMPtk pip…
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RT @mueller89_r: Definitely a nice read and one of the few outlining why ITS amplicons need a different approach of analysing. @jonpalmer20…
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RT @mueller89_r: Definitely a nice read and one of the few outlining why ITS amplicons need a different approach of analysing. @jonpalmer20…
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