Bioinformatics Tools in the Genboree Workbench
Genboree users are able to upload and store data, access bioinformatics tools, and perform analyses using the Genboree Workbench. The Workbench contains many project management, data management, and data analysis tools. Please register at www.genboree.org and browse the Workbench to see the complete set of tools, including those in beta release. A few of the primary tools are highlighted here:
Project and Data Management Tools
Project Management Tools
Create Project
Rename Project
Delete Project
Copy Project
Data and File Management Tools
Databases
-Create Database
-Rename Database
-Delete Database
-Edit Database Info
Files
-Transfer File
-Copy/Move File
-Remove File(s)
Transcriptome Analysis
-Analyze RNA-Seq Data
-Map Read and Splice Junctions by TopHat
-Assemble and Measure Transcripts by Cufflinks
-Detect Transcription Changes by Cuffdiff
Cistrome Analysis
Call ChIP-Seq Peaks by MACS
Epigenome Analysis
-Identify epigenetic signatures using Spark
-Methylation analysis using LIMMA
-Compute similarity matrix (cluster analysis and heatmap visualization)
Metagenome Analysis
-Taxonomic Classification (RDP)
-QIIME
-Alpha Diversity
-Machine Learning (Random Forest and Boruta)
Request BRL Core Services
Visit our request services webpage to register with Genboree Workbench tools and for a request form to begin uploading data into Genboree.
