stephenkocsis14
Research technologist at Mayo Clinic, FL in Dr. Fairweather's Cardio-Immunology laboratory. Bioinformatics master's student at Johns Hopkins university.
Mayo ClinicJacksonville, FL
Pinned Repositories
clue-game-server
LFOmics
Integrate multiomic datasets using autoencoder-based feature extraction and perform GSEApy enrichr functional enrichment analysis on top features.
Nextflow-Pipelines
Nextflow pipelines for various bioinformatics, machine learning, and statistical analyses.
NormSeq
Easy to use RNA-sequencing data normalization tool built in C++ for use in Python. Can handle many popular normalization techniques.
PyLit
Conduct a mass literature review using Python by inputting a key word or phrase of interest. This Python script can be used to query the PubMed database using Biopython. Input user email, how many papers you would like to be returned per query, and what date range you would like to have papers returned from.
RNA-seq-differential-expression-pathway-analysis-with-Sailfish-DESeq2-GAGE-and-Pathview
This tutorial shows an example of RNA-seq data analysis with DESeq2, followed by KEGG pathway analysis using GAGE and plotting using Pathview.
stephenkocsis14.github.io
WGCNA-Turorial
This is a tutorial of the weighted gene correlation network analysis (WGCNA) package from Dept. of Human Genetics, UC Los Angeles.
stephenkocsis14's Repositories
stephenkocsis14/PyLit
Conduct a mass literature review using Python by inputting a key word or phrase of interest. This Python script can be used to query the PubMed database using Biopython. Input user email, how many papers you would like to be returned per query, and what date range you would like to have papers returned from.
stephenkocsis14/LFOmics
Integrate multiomic datasets using autoencoder-based feature extraction and perform GSEApy enrichr functional enrichment analysis on top features.
stephenkocsis14/Nextflow-Pipelines
Nextflow pipelines for various bioinformatics, machine learning, and statistical analyses.
stephenkocsis14/NormSeq
Easy to use RNA-sequencing data normalization tool built in C++ for use in Python. Can handle many popular normalization techniques.
stephenkocsis14/RNA-seq-differential-expression-pathway-analysis-with-Sailfish-DESeq2-GAGE-and-Pathview
This tutorial shows an example of RNA-seq data analysis with DESeq2, followed by KEGG pathway analysis using GAGE and plotting using Pathview.
stephenkocsis14/stephenkocsis14.github.io
stephenkocsis14/WGCNA-Turorial
This is a tutorial of the weighted gene correlation network analysis (WGCNA) package from Dept. of Human Genetics, UC Los Angeles.