/tag/tools

  • Bioinformatics Resources on Rivanna

    The UVA research community has access to numerous bioinformatics software installed directly or available through the bioconda Python modules. Click here for a comprehensive list of currently-installed bioinformatics software. Popular Bioinformatics Software Below are some popular tools and useful links for their documentation and usage: .tg {border-collapse:collapse;border-spacing:0;border-color:#ccc;} .tg td{font-family:Arial, sans-serif;font-size:14px;padding:10px 5px;border-style:solid;border-width:0px;overflow:hidden;word-break:normal;border-color:#ccc;color:#333;background-color:#fff;} .tg th{font-family:Arial, sans-serif;font-size:14px;font-weight:normal;padding:10px 5px;border-style:solid;border-width:0px;overflow:hidden;word-break:normal;border-color:#ccc;color:#333;background-color:#f0f0f0;} .tg .tg-hy9w{background-color:#eceeef;border-color:inherit;vertical-align:middle;} .tg .tg-dc35{background-color:#f9f9f9;border-color:inherit;vertical-align:middle;} .tg .tg-hy9w-nw{background-color:#eceeef;border-color:inherit;vertical-align:middle;white-space:nowrap;} .tg .tg-dc35-nw{background-color:#f9f9f9;border-color:inherit;vertical-align:middle;white-space:nowrap;} .tg .tg-0qmj{font-weight:bold;background-color:#eceeef;border-color:inherit;vertical-align:middle;} .scroll thead, .scroll tbody {display: block} .scroll tbody {overflow-y: auto; height: 500px;} .scroll thead tr:after {content: ‘';overflow-y: scroll; visibility: hidden; height: 0;} Tool Version Description Useful Links BEDTools 2.
  • BART Web

    BART (Binding Analysis for Regulation of Transcription) Web Working with researchers in the Zang Lab in the Center for Public Health Genomics (CPHG), RC helped launch BARTweb, an interactive web-based tool for users to analyze their Genelist or ChIP-seq datasets. BARTweb is a containerized Flask front-end (written in Python) that ingests files and submits them to a more robust Python-based genomics pipeline running on Rivanna, UVA’s high performance computing cluster (HPC). This architecture – of a public web application that uses a supercomputer to process data – is a new model for UVA, and one that eases the learning curve for researchers who may not have access to an HPC system or the expertise to run a BART pipeline in the command-line.