Study, Analyze, Learn, Discover
Genome Workbench offers researchers a rich set of integrated tools for studying and analyzing genetic data. Users can explore and compare data from multiple sources including the NCBI databases or the user’s own private data.
Data analysis in Genome Workbench is supported by an advanced suite of industry standard alignment tools including BLAST, Clustal, Kalign, MAFFT among others. Learning and Discovery is accomplished along the way. When a researcher studies and analyzes results with Genome Workbench, they view the data in novel ways that leads to new understanding and discovery.
Users are invited to take advantage of the flexibility included via these tools to create phylogenetic trees, alignments, tabular view etc. of data to graphically display data analyses in publications and presentations.
Graphical Views, Integrated Tools, and Data Formats available in NCBI Genome Workbench:
| Graphical Views | Integrated Tools |
|
Alignment views
Sequence views
Generic views
|
Alignment Creation tools
Edit tools
Multiple Sequence Aligners
Tree Building tools
|
| Data Formats | |
| NCBI ASN1, AGP, BAM, BED, CSRA, FASTA, GFF, GVF, NEWICK, NEXUS, REPEAT MASKER, TABLE, TEXT ALIGNMENT, VCF, WIGGLE, 5 COLUMN FEATURE | |
| Sequence Editing Package | |
| Genome Workbench offers a Sequence Editing Package that allows users to create, edit, validate, and submit a genome sequence submission to GenBank. The package includes a pop-up, tabbed wizard that directs a submitter through the data input steps needed to create a submission and a menu of editing and reports tools that can be used on an existing submission. Start with watching the Introducing the Genome Submission Wizard video tutorial. | |
Genome Workbench is a free open-source software under the terms of the United States Copyright Act. This software/database is freely available to the public for use. The National Library of Medicine and the U.S. Government have not placed any restriction on its use or reproduction.
Please refer this book chapter for additional methods and to cite your use of our software in your publications.
Complete sources, build instructions and scripts are located at: https://ftp.ncbi.nlm.nih.gov/toolbox/gbench/
NCBI Genome WorkBench uses third party tools and libraries.
NCBI Genome Workbench Privacy information.
Current Version is 3.8.2 (released December 12, 2022)
General
Help
Tutorials
- Basic Operation
- Using Active Objects Inspector
- Configure tracks and track display settings
- Working with Non-Public Data
- Viewing Multiple Alignments and Trees
- Broadcasting
- Genes and Variation
- Generating and Viewing Sequence Overlap Alignment
- Working with BAM Files
- Loading Tabular Data
- Working with VCF Files
- Sequence View Markers
- Opening Projects in Genome Workbench
- Publication quality graphics (PDF/SVG image export)
- Editing in Genome Workbench
- Create Protein Alignments using ProSplign
- GFF-CIGAR export for alignments
- Exporting Tree Nodes to CSV
- Generic Table View
- Running BLAST search against custom BLAST databases
- Using Phylogenetic Tree
- Coloring methods in Multiple Alignment View
- Displaying translation discrepancies
- Searching in Genome Workbench
- Graphical View Navigation and Manipulation
- Using the Text View to Review and Edit a Submission
- BAM haplotype filtering
- Displaying new non-NCBI molecules with annotations
- Creating phylogenetic tree from precalculated multiple alignment
- Creating phylogenetic tree starting from search
- Video Tutorials
General use Manuals
- Tree Viewer Formatting
- Tree Viewer Broadcasting
- Genome Workbench Macro
- Query Syntax in Genome Workbench and Tree Viewer
- Multiple Sequence Aligners
- Running Genome Workbench over X Window System
NCBI GenBank Submissions Manuals
- Table of Contents
- Introduction
- Genome Submission Wizard
- Save Submission File
- Reports
- Import
- Sequences
- Add Features
- Add Publication
- Comments
- Editing Tools