Version 18 code release features a lot of improvements, including new look of user interface throughout the entire browser, and most importantly, the support of BAM files.
You can get the source code from dropbox, or from our web site.
Open up the browser and click "CustomTk" button in the toolbox to show this:
Click button "BAM" to and we're ready to submit a custom BAM track:
Enter URL and track name, and press . Following shows the display of sample BAM track of human hg19 genome:
Clicking on a read will invoke a bubble showing detailed info about the read, including its alignment:
Showing a paired-end sequencing assay result, where reads mapped on forward strand are in teal , and reads on reverse strand are in fuchsia . Mismatches are in yellow . Clipped bases are in gray .
Details about mismatches, insertion, deletion, clipping can also be viewed in the bubble. For instance:
A BAM track can also be submitted via URL parameter, and also through data hub.
For instance, the following URL displays a BAM file in hg19 genome:
http://epigenomegateway.wustl.edu/browser/?genome=hg19&custombam=sample+BAM+track,http://vizhub.wustl.edu/hubSample/hg19/bam1.bam,thin
Finally, the SAM files are no longer supported.
Credit: Chee-Hong Wong
You can get the source code from dropbox, or from our web site.
BAM file support
Open up the browser and click "CustomTk" button in the toolbox to show this:
Click button "BAM" to and we're ready to submit a custom BAM track:
Enter URL and track name, and press . Following shows the display of sample BAM track of human hg19 genome:
Clicking on a read will invoke a bubble showing detailed info about the read, including its alignment:
Showing a paired-end sequencing assay result, where reads mapped on forward strand are in teal , and reads on reverse strand are in fuchsia . Mismatches are in yellow . Clipped bases are in gray .
Details about mismatches, insertion, deletion, clipping can also be viewed in the bubble. For instance:
A BAM track can also be submitted via URL parameter, and also through data hub.
For instance, the following URL displays a BAM file in hg19 genome:
http://epigenomegateway.wustl.edu/browser/?genome=hg19&custombam=sample+BAM+track,http://vizhub.wustl.edu/hubSample/hg19/bam1.bam,thin
Finally, the SAM files are no longer supported.
Credit: Chee-Hong Wong
New user interface
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