Final Exam for Coursera's Python for Genomic Data Science course

Genomic Analysis of Canis lupus with the use of Genomic Maps and Philogenetic Trees

R package for annotating and parsing transposable elements-associated data

This repository contains the file codes used to complete the final project for the course Post Genomic Analysis.

NLR-Assembler is a command line tool for improving RenSeq Assemblies using linked-read sequencing by 10x Genomics.

Kissinger Research Group Shared Code

Genomics Carpentries Workshop at Rutgers University, April 25-26, 2024

Reverse Complement PCR (RC-PCR_ Classification pipeline.

This repository serves as a valuable resource for individuals engaged in data exploration, statistical analysis, and research within the domains of plant breeding, genetics, statistics, and genomics. The purpose of this repository is to share a collection of R codes that can be utilized by others for their own data analysis projects

Filter DE genes based on log2Folchange, FDR value or both

Genetic Algorithm implementation to study haplotypes of genomic features

Data for Smith et al. 2021 in Ecology and Evolution

This is a TxDb package created for Coffea arabica (coffee).

Supervised classification of various species DNA sequences using FFT and Machine Learning.

Using NVIDIA Deepmind's Nucleotide Transformer to generate embeddings for yeast genomes.

This repository is the current repository for our Jones et al. 2024 manuscript titled Long-read RNA sequencing identifies region- and sex-specific C57BL/6J mouse brain mRNA isoform expression and usage.

Machine Learning in Omics: Integration of Metagenomics and Metabolomics.

To perform RNA-Seq data analysis and calculate length-scaled transcripts per million (TPM) values using the Salmon tool and the GenomicFeatures package in R.

Extraction of genomic background set of DNA sequences for a given foreground set of sequences for subsequent de novo motif discovery

Automating WES Data analysis (primarily of Cancer).