different file formats for ucsc genome browser

Introduction to de novo genome assembly for Illumina readsĭe novo assembly of Illumina reads using Velvet (Galaxy)ĭe novo assembly of Illumina reads using Spades (Galaxy) Introduction to de novo assembly with Velvet Section 2: The UCSC Genome Browser InterfaceĬommon Workflow Language for Bioinformatics Section 1: Introduction to Genome Browsers If this solution is still not the visualization you were hoping to achieve, please let me know and I will look for another solution.Preparing you and your laptop prior to starting this workshop If you have selected only graph tracks, you can edit the Y-Axis Scale and this will adjust the scale for all selected graphs.

If you want your Depth Graphs to all have the same Y-Axis scale, you can hold Shift while selecting Track Labels to select more than one track at a time. I have attached a screenshot of two sets of depth graphs with different Y-axis scales, to help illustrate the difference. If I understand your goal correctly, you should be able to produce the visualizations you are looking for by changing the Y-Axis scales for the Depth graphs. You may already be aware of this, but if you click on a track label and then select the Graph tab at the bottom of IGB, you can adjust many settings related to the Depth Graphs, including the Y-Axis Scale. Based on the second IGB screenshot you sent, I can see that you have created Depth Graphs tracks from the loaded BED files. Sorry for my delay in responding to your comment. Also, if you would like to share your files with us so that we can better assist you with viewing your data, feel free to contact us through our Support Page. If you need any additional assistance, please don' hesitate to ask. The annotation tab, towards the bottom of IGB contains some additional settings that may be useful for creating the visualization you are hoping to achieve. Once your files are open in new tracks, you can select the Load Data button towards the top of IGB to load data visualizations for the region in view. Once your genome has loaded, you can open your BED files into IGB by selecting Load File from the File menu, or you can just drag-and-drop the files right onto the IGB stage.

If I understand correctly, you wish to visualize two bed tracks with one on top of the other, correct? If this is the case, IGB should do the job well.Īfter starting IGB, select the genome you are working with by clicking on one of the images on the IGB Home Screen (or you could select your species and genome version from the drop-down boxes towards the upper-right of the program). I apologize for my delay in answering your question. My name is Mason Meyer, IGB Support Specialist.

Different file formats for ucsc genome browser