Alex Soupir's repositories
Bioinformatics_YouTube
The Github Page with some of the information pertaining to the YouTube videos.
cuda_conda
conda environment to interact with GPU in pytorch
Image_Shuffler
Selects random images and displays them in a Shiny dashboard.
microbiome_procedures
Mothur procedures for 16S and ITS analysis
Simple-Genome-Mining
Simple script to take *.fasta annotation files and compares that to a characteristic key for whether individual annotation files displayed a phenotype or not. Hypothetical proteins are removed and then the positive phenotype is compared to the negative phenotype for the difference in genome annotated genes.
Endophyte
Package to make endophyte data processing more simple
Genome_STAR_Index
Index Files Created from STAR Genome Generator
GEVisor
Visualization of gene expression data from GeoMx-DSP experiments
High-Performance-Computing-Conference
Presentation for High Performance Computing Conference at South Dakota State University 2019 (Research Symposium 2019).
MiscProcessingScripts
Miscellaneous scripts written to help dealing with big data
Preterm-Dream-Challenge
DREAM challenge subchallenge 1 submission for SDSU team.
PytorchExamples
Learning Pytorch in Google Colab - Testing
SDState-Stat601
Modern Applied Statistics 1
SDState-Stat602
Modern Applied Statistics II
shinyCopyNumber
test app to get copy number variation information
Soybean-Microbiome
Mothur Analysis of soybean microbiome for bacterial, arbuscular mycorrhiza, and broad fungal communities.
spatialGE
An R package for visualization and analysis of spatially-resolved gene expression