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2015-05-12-busm-git

Software Carpentry files

2023_06_rnaseq_tutorial

This is a tutorial for my RNA-seq tutorial taught at Makerere University on in June 2023

2023_11_r_tutorial

Github page and resources for R tutorial, November 2023

2023_12_bu_ml_workshop

This is the repository for the BU Machine learning workshop at Boston University on 12/11/2023

2024_04_r_tutorial

This is the GitHub repository for my R tutorial (YouTube) from April 2024

2024_05_rrds_ml_workshop

Repository for the Kernel Machine Learning Workshop for the 2024 Red Rock Data Science Student Conference

2024_05_rrds_r_workshop

These are the materials for the R for Data Science tutorial co-taught by Rick Brown (SUU) and Evan Johnson (Rutgers) at the 2024 Red Rock Data Science Student Conference

2024_07_hmm_tutorial

GitHub materials for my HMM and Dynamic Programming tutorial at the UCLA Computational Biomedicine Retreat in 7/24

2024_spring_bdma

This is the Course GitHub for all materials and assignments for Biomedical Data Analysis (Spring 2024)

alzheimers

Code for analysis of data for Shah et al.: Discovery and Subsequent Confirmation of Novel Serum Biomarkers Diagnosing Alzheimer’s Disease

animalcules

R shiny app for total RNA-seq microbiome + transcriptome analysis

animalcules.preprocess

Preprocessing tools from .fastq to animalculesID output (summed reads to taxIDs and genomes)

assign

ASSIGN is an R package for adaptive profiling of genomic signatures

batchqc

Provides Quality Control of sequencing samples by deducing if there is batch effect and adjusts for it.

batchqc-1

Batch Effects Quality Control Software

bild_signature_validation

Validation of pathway signatures

bmdalectures

Here is a junk repository for my BMDA class

bu_rworkshop

Some R code for the BU SPH R workshop

combat-seq

Batch effect adjustment based on Negative Binomial regression and empirical Bayes method for sequencing read counts

datasciencelecturesspring2023

Materials for the International Data Science Lecture Series for Spring 2023

dsbook

Repository for data science book

ggplot2_lesson

A 50 minute tutorial on ggplot2.

github-pages-with-jekyll

hnrnph1

Software and data for QTL in collaboration with the Bryant Lab

junk

math_3190_hw

My homework

math_3190_hw-1

Homework repo for Fundamentals of Data Science

metascope

An R-based approach for preprocessing and aligning 16S, metagenomic, and metatranscriptomic data (PathoScope version 3.0)

microbiome_tutorial

Here is my microbiome data analysis tutorial for using PathoScope and other tools!

microbiome_tutorial_2018_10_makerere

Github repository for the materials from the microbiome tutorial taught at Makerere University in Oct 2018