This repository contains code for my shiny/mercury visualization apps, made to visualize omics data.
- view_contacts (Hi-C): This app is made to show Hi-C contact map and profile of user input's genomic coordinates. Data is generated from .mcool files. Notice this app is meant to compare two conditions/cell types, so the map isn't symmetrical.
- RNA-seq visualization tool: This app visualizes expression data (TPM) of two conditions/cell types in both scatter plot and box plots with statistical significance annotations. It allows you to choose multiple genes at once to compare between them.
- VEP_viewer: Variant effect prediction viewer. This app visualizes the effect of the variant using a scatter plot of the original TFBS score vs the score in the mutated sequence, for each variant in the "quality DSD variants" table.