Repositories list

• py-mfdca

  Public
  Simple Python Implementation of mean-field Direct Coupling Analysis

  D

  •1•4•1•0•Updated Jul 29, 2025Jul 29, 2025

• dcaServerFrontend

  Public
  JavaScript

  •0•0•0•0•Updated Jul 28, 2025Jul 28, 2025

• coevolution-portal-backend

  Public
  Python

  •1•0•0•0•Updated Jul 25, 2025Jul 25, 2025

• profiles

  Public
  A web app for displaying researcher profiles, providing user-editable information and basic pages to aesthetically promote and highlight researcher activities and achievements.

  PHP

  •

  MIT License

  •0•6•37•15•Updated Jul 22, 2025Jul 22, 2025

• seec-nt

  Public
  Python implementation of seec-nt

  Python

  •0•0•0•0•Updated Jul 18, 2025Jul 18, 2025

• miRNA-Analysis

  Public
  0•0•0•0•Updated Jun 25, 2025Jun 25, 2025

• Interactome-Analysis

  Public
  R

  •0•0•0•0•Updated May 1, 2025May 1, 2025

• Nageotte-Nodule-Analysis

  Public
  Nageotte nodules in human DRG reveal neurodegeneration in painful diabetic neuropathy.

  R

  •

  MIT License

  •0•0•0•0•Updated Apr 1, 2025Apr 1, 2025

• RNA-Data

  Public
  https://sensoryomics.shinyapps.io/RNA-Data/

  R

  •1•0•0•0•Updated Mar 14, 2025Mar 14, 2025

• visium10x-spatial-transcriptomics-pipeline

  Public
  This repository provides an R-based pipeline for analyzing spatial RNA-seq data using Seurat, STDeconvolve, and Giotto. Designed to process and analyze spatial transcriptomics data through a sequence of well-defined steps, enabling in-depth exploration and interpretation of spatially resolved gene expression profiles.

  giottoseuratvisium+ 2stdeconvolvevisium-analysis

  R

  •

  MIT License

  •0•0•0•0•Updated Feb 17, 2025Feb 17, 2025

• Bulk-RNA-Seq-Nextflow-Pipeline

  Public
  This is an automated workflow pipeline for analyzing and processing Bulk-RNA seq data, implemented primarily in bash, python and R, and wrapped in a NextFlow workflow to characterize the gene landscape in the samples.

  rna-seqmultiqcstar+ 10bedtoolsrna-seq-analysissamtoolsfeaturecountsbamtoolshtseq-countstringtie+ 3

  Nextflow

  •

  MIT License

  •1•0•1•0•Updated Nov 22, 2024Nov 22, 2024

• ATACSeq-NextFlow-Pipeline

  Public
  This is an automated workflow pipeline for analyzing bulk ATAC-seq data, implemented primarily in bash scripts, and wrapped in a NextFlow workflow.

  atac-seqatacseqatac-seq-pipeline

  Shell

  •

  MIT License

  •0•1•0•0•Updated Sep 24, 2024Sep 24, 2024

• visium_spatial_analysis_tool

  Public
  Visium Spatial Gene Expression is a next-generation molecular profiling solution for classifying tissue based on total mRNA. The steps involved in classifying the Spatial Gene Expression is done in this tool using python and R.

  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 23, 2024Sep 23, 2024

• resource-catalog-plugin

  Public
  A WordPress plugin to manage and display a searchable, filterable catalog of resources.

  PHP

  •

  MIT License

  •0•2•0•0•Updated Jul 22, 2024Jul 22, 2024

• visium_distance_plotting_tool

  Public
  The Visium Distance Plotting Tool is a python-based application that offers a range of interactive plots for analyzing visium single-cell data(e.g. csv files).

  Python

  •

  MIT License

  •1•0•0•0•Updated Jun 13, 2024Jun 13, 2024

• orgchart-wordpress-plugin

  Public
  A WordPress plugin for managing people and generating directories and org charts.

  pluginwordpresswordpress-plugin+ 1org-chart

  PHP

  •

  MIT License

  •1•0•0•0•Updated May 14, 2024May 14, 2024

• TRAP-Analysis

  Public
  TRAP-Analysis tool enables the investigation of cell-specific mRNA associations with ribosomes obtained from Translating Ribosome Affinity Purification (TRAP) sequencing.

  Python

  •

  MIT License

  •0•0•0•0•Updated May 7, 2024May 7, 2024

• dca_workshop

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Jan 30, 2024Jan 30, 2024

• alphafold

  Public
  Open source code for AlphaFold.

  Python

  •

  Apache License 2.0

  •2.5k•0•0•0•Updated Dec 9, 2023Dec 9, 2023

• OpenNOP

  Public
  Network Observability Platform for monitoring of OpenROADM-based multi layer optical networks

  TeX

  •0•1•0•0•Updated Jul 3, 2023Jul 3, 2023

• sg-budget-breakdown

  Public
  A website that allows one to visualize the UT Dallas budget

  JavaScript

  •0•0•4•0•Updated Apr 19, 2023Apr 19, 2023

• cayuse-connector

  Public
  A single-page web application providing an easy-to-use interface to interact with the Cayuse API.

  PHP

  •

  MIT License

  •0•1•0•0•Updated Dec 21, 2022Dec 21, 2022

• openroadm_exporter

  Public
  Prometheus Exporter for OpenROADM Devices

  Go

  •

  MIT License

  •8•0•0•0•Updated Nov 13, 2022Nov 13, 2022

• af2complex

  Public
  Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.

  Python

  •18•0•0•0•Updated Aug 31, 2022Aug 31, 2022

• profiles-wordpress-plugin

  Public
  PHP

  •

  MIT License

  •0•0•1•0•Updated Jul 7, 2022Jul 7, 2022

• openfold

  Public
  Trainable PyTorch reproduction of AlphaFold 2

  Python

  •

  Apache License 2.0

  •616•0•0•0•Updated Feb 23, 2022Feb 23, 2022

• utdallas-branding-bar

  Public
  A WordPress plugin to show the UT Dallas branding top bar

  PHP

  •

  MIT License

  •0•0•1•0•Updated Oct 5, 2021Oct 5, 2021

• pain-test-01

  Public
  0•0•0•0•Updated Sep 23, 2021Sep 23, 2021

• progen

  Public
  Implementation and replication of ProGen, Language Modeling for Protein Generation, in Jax

  Python

  •

  MIT License

  •17•0•0•0•Updated Sep 8, 2021Sep 8, 2021

• aws-ai-qna-bot

  Public
  Code samples related to "Creating a Question and Answer Bot with Amazon Lex and Amazon Alexa", published on the AWS AI Blog. QnABot (pronounced “Q and A Bot”), uses Amazon Lex and Amazon Alexa to provide a conversational interface to your “Questions and Answers”, so users can just ask their questions and get quick and relevant answers.

  JavaScript

  •

  Other

  •262•0•0•0•Updated Jul 3, 2021Jul 3, 2021