miARma-seq: a comprehensive tool for miRNA, mRNA and circRNA analysis

Bioinformatics Pipeline

myBrain-Seq: a Compi pipeline for miRNA-Seq data analysis in neuropsychiatry

An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.

scripts and resources for performing miRNA sequencing analysis using tools like mirPRo and miRDeep2. Explore the code to process reads, map them to the genome, quantify known miRNAs, identify novel miRNAs, and browse the results

miRSim Synthetic Sequence Simulator

[Tools] miRanda: An miRNA target scanner that aims to predict mRNA targets for microRNAs using dynamic-programming alignment and thermodynamics

Scripts of Final Master Project

An awesome microRNA-sequencing pipeline

multiMiR package in R, providing gene-miRNA-lncRNA interactions for ceRNA network construction

An open-source R package to comprehensively explore the role of impaired miRNA regulatory networks in complex biological conditions.

R package to predict gene feed forward loops using mediation analysis. Analyses integrate observed miRNA and mRNA expression data and database information on gene interactions.

Workflow Template

All the R scripts I used during my time as a grad student at Clemson University