You now have access to bulk settings options for track hubs in the Genome Data Viewer (GDV) and Sequence Viewer. These settings allow you to pick the default tracks that load into the viewer from your chosen track hub. You can access the bulk options menu for by clicking on the collapsed menu or “hamburger” icon (stack of horizontal bars) at the right end of the track grouping in the Configure Track Hubs dialog (Figure 1).Figure 1. The Configure Track Hubs dialog in GDV. You can activate the bulk settings menu for a connected track hub by clicking on hamburger icon at the right of the track grouping. Clicking Select Default tracks checks on all of the tracks in that grouping, Smoothed PhyloCSF in this case. Continue reading “Bulk track hub settings now in Genome Data Viewer”
Tag: Genome Browser
You can now download images in both PDF and Scaled Vector Graphics (SVG) formats from our Sequence Viewer and genome browsers such as the Genome Data Viewer! SVG files are ideal for editing in image editors and provide high quality graphics for publications, posters, and presentations. Both the PDF and SVG files that you download contain vector graphics for high fidelity images.
You can download image files by choosing the “Printer-Friendly PDF/SVG” option under the Tools menu from any Graphical Sequence Viewer application (Figure 1).
Figure 1. Printer friendly download options from the graphical view in the Genome Data Viewer. You can download either PDF or SVG formats, which are easily edited in standard graphics applications.
You can now access NCBI’s Genome Data Viewer directly from the Track Hub Registry at EBI!
When you search for a track hub in the Track Hubs Registry, you now have the option to open the hub with NCBI GDV.
On June 18, 2019, NCBI’s Sanjida Rangwala will demonstrate the rich data visualization capabilities of NCBI’s genome browser at a conference that is part of the Rocky Mountain Genomics Hackcon. As mentioned in a previous post, NCBI staff will also participate in an NCBI-style Hackathon as part of the larger event. The genome browser presentation and demonstration will show you how to create visuals that provide insights and show connections among genes, transcripts, variation, epigenomics and GWAS data from NCBI sources. You will also see how you can upload your own data and embed NCBI viewers on your own pages.
Earlier this year, NCBI announced plans to retire the Clone DB web interface. Pursuant to this retirement, starting on May 27, 2019, all web pages associated with Clone DB and CloneFinder will redirect to this blog post. Links to Clone DB from the NCBI home page will also be going away.
Did you know you can easily switch between gene feature modes in NCBI’s graphical sequence displays like Sequence Viewer and GDV? You may need to configure gene tracks to suit your needs if, for example, you need to conduct analyses or present quality images.
Use one of two easy access points to the gene configuration menu to show the gene bar, the single line gene model or the expanded modes that show transcripts and CDSs.
If you need to change your graph type – say, from histogram to line graph or a heat map – in Genome Data Viewer (GDV), you can now do so with a few clicks.
Click on the track name of any graph track to change the display (see Figure 1A, B and C).
We’ve recently improved the tooltips for gene features in NCBI’s graphical sequence displays in Genome Data Viewer (GDV) and on many resource pages, such as Gene and dbSNP. These enhancements include quick details and helpful links about the feature and gene.
Next week, NCBI staff will attend the Plant and Animal Genome (PAG) Conference. We have several activities planned, including 1 booth (#223), 4 workshops, 1 talk and 2 posters.
Read on to learn more about what you can look forward to if you’re attending PAG this year. (Note: The listed times are Pacific time.)
This webinar is intended for both new and experienced Track Hubs users.
Join us November 28, 2018 at noon EST for an NCBI Minute explaining what GDV’s Track Hubs are and how they can help you in your research.
Register here: https://bit.ly/2PUHBqz
After this webinar, you’ll be able to: