Author Archives: andrewkeiko

Lab meeting 11/12

Figure out appropriate stats, look at papers and ask dr. Pelky Meeting with Dr. Lamendella the last week before finals Thursday, dec 6th meeting lamendella lab night. Paired presentation

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Lab meeting 10/29

Ideas for crowd sourcing Turn in form and cc. Dr. L Send abstract to Dr. L Results from heatmapping and nmds Nmds-not seeing clustering, either due to not being robust enough or just need a different type of visualization Procrustes … Continue reading

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Lab meeting 10/15 abstract

Abstract 1. What is the problem? Obesity and related health issues rates continue to rise and understanding the contributions of the gut microbiota area is a relatively new field that may offer novel management of the disease. 2. 1-2 sentences. … Continue reading

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PC ORD meeting 10/12

Stats wish list 1. nmds 2. correlation between nmds and bacterial profiles vector analysis pearson correlation 3. ISA-indicator species analysis which species are characteristic of baseline and which correlate with glucose 4. Network analysis robust method, not just pretty picture … Continue reading

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Lab meeting 10/08

Notes otu table-otu vs. sample qiime to pc ord compare samples based on nmds pearson’s correlation- metadata correlated with nmds, vector direction quantify amount of target in sample Things to do in future meeting on wednesday for figuring out …….. … Continue reading

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Meeting with Dr. Lamendella

Goals Determined location of OTU table. Meta analysis>input name>perform analysis>find “dietary crossover” TO DO: Add data after baseline. Upload metadata, format into qiime. Search qiime database to learn how to deal with database How to convert .biome file to .xls … Continue reading

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Tutorial for QIIME

http://qiime.org/tutorials/tutorial.html This tutorial explains how to use the QIIME (Quantitative Insights Into Microbial Ecology) Pipeline to process data from high-throughput 16S rRNA sequencing studies. If you have not already installed qiime, please see the section Installing Qiime first. The purpose of this pipeline is … Continue reading

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