srusher

Bioinformatics-Pipeline

A pipeline bash script used for the retrieval, assembly (alignment and scaffold assembly), gene annotation, and RNA seq analysis of B. Thuringiensis sequence reads

BioJava-FASTA-Reader

This program uses BioJava 1.7.1 packages to intake a FASTA file and parse out ORFs 1-3

DNA-Palindrome-Generator

This program is designed to convert a DNA string into a palindrome utilizing the fewest possible nucleotide insertions - all bases from the original sequence are preserved

DNA-to-Amino-Acid-Converter

This program breaks apart a DNA string and dispalys each amino acid associated with each codon

Ebola-Recon

IDs Ebola positive sequence reads

FASTA_Parser

This program will import a fasta file, parse out the sequence ID with its associated DNA sequence, and allow the user to retrieve a DNA sequence by entering in the appropriate sequence ID

Pathogen-Discovery

Analyzes long read and short-paired read data for pathogens

protein-strut-pymol

Python-for-Data-Science-and-Machine-Learning

Repo of notes and projects I worked on through my Python + Machine Learning course

Restriction-Enzyme-Recognition-Site-Locator

This program will read a DNA sequence from a .txt file and find each cut site and fragment length produced for a given restriction enzyme

srusher/Python-for-Data-Science-and-Machine-Learning

Repo of notes and projects I worked on through my Python + Machine Learning course

srusher/Bioinformatics-Pipeline

A pipeline bash script used for the retrieval, assembly (alignment and scaffold assembly), gene annotation, and RNA seq analysis of B. Thuringiensis sequence reads

srusher/DNA-to-Amino-Acid-Converter

This program breaks apart a DNA string and dispalys each amino acid associated with each codon

srusher/Ebola-Recon

IDs Ebola positive sequence reads

srusher/Pathogen-Discovery

Analyzes long read and short-paired read data for pathogens

srusher/protein-strut-pymol

srusher/Restriction-Enzyme-Recognition-Site-Locator

This program will read a DNA sequence from a .txt file and find each cut site and fragment length produced for a given restriction enzyme

srusher/BioJava-FASTA-Reader

This program uses BioJava 1.7.1 packages to intake a FASTA file and parse out ORFs 1-3

srusher/DNA-Palindrome-Generator

This program is designed to convert a DNA string into a palindrome utilizing the fewest possible nucleotide insertions - all bases from the original sequence are preserved

srusher/FASTA_Parser

This program will import a fasta file, parse out the sequence ID with its associated DNA sequence, and allow the user to retrieve a DNA sequence by entering in the appropriate sequence ID

srusher/K-means-Clustering-Gene-Expression

K-means Cluster analysis of gene expression levels provided by adrenal carcinoma cells (expression data retrieved from Bioconductor)

srusher/My-First-GUI

A simple GUI I made in Java using the javax.swing library

srusher/Protein-Domain-Locator

This program utilizes regex patterns to locate the Zinc Finger protein domain from a FASTA file. The output will produce every Accession ID, the associated protein sequence and the Zinc FInger domain underlined in each prtoein sequence.

srusher/tautyping-nf

This pipeline identifies genes or genomic segments which most closely resemble the genome-wide phylogenetic signal of a given organism using the Kendall Tau rank correlation statistic