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16s_embeddings

Generate numeric representations of microbiome sequence data for downstream analysis

asa_mortality

awesome-machine-learning

A curated list of awesome Machine Learning frameworks, libraries and software.

bash

Bash user files

bgwas

bioinformatics

Short lectures on bioinformatics with programming

cnnlstm

CNN-LSTM neural network tested for 16S rRNA data

cv

Curriculum vitae

db_scraping

Scrape img and kegg: probably outdated, but still useful code

deep-review

A collaboratively written review paper on deep learning, genomics, and precision medicine

delirium

embeddings

gpu_benchmarking

GPU benchmarking using neural networks

kmer_embeddings

latex-fontawesome

Bindings for FontAwesome icons to be used in XeLaTeX.

mbts

Generation of microbiome time series signals using ARIMA

rcrust

Early attempt to adapt PICRUSt to R

shiny_apps

stm

An R Package for the Structural Topic Model

substance_use

teaching

Various tutorials and code from classes taught and previous work.

themetagenomics

R pkg to explore topics generated from 16S rRNA sequencing information on both the abundance and functional levels

theseus

R pkg for analysis, visualization, and interpretation of community composition data