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arXiv · 2411.17901

Assessing microbiome engraftment extent following fecal microbiota transplant with q2-fmt

Chloe Herman·Evan Bolyen·Anthony Simard·Liz Gehret·J. Gregory Caporaso
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Abstract

We present q2-fmt, a QIIME 2 plugin that provides diverse methods for assessing the extent of microbiome engraftment following fecal microbiota transplant. The methods implemented here were informed by a recent literature review on approaches for assessing FMT engraftment, and cover aspects of engraftment including Chimeric Asymmetric Community Coalescence, Donated Microbiome Indicator Features, and Temporal Stability. q2-fmt is free for all use, and detailed documentation illustrating worked examples on a real-world data set are provided in the project's documentation.

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Chloe Herman, Evan Bolyen, Anthony Simard, Liz Gehret, J. Gregory Caporaso. 2024-11-26. Assessing microbiome engraftment extent following fecal microbiota transplant with q2-fmt. https://arxiv.org/abs/2411.17901

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