Is there a program for viewing BED files and WIG files? From my own googling, it seems like there are websites that can do this, although I'm not sure how to use them.
•
written
by
KCC
This is one of those applications that are surprisingly hard to find comparisons of (google-ing often leads to many false paths), some that come to mind are:
Integrative Genomics Viewer: http://www.broadinstitute.org/igv/
Integrated Genome Browser: http://bioviz.org/igb/
Lightweigth Genome Viewer: http://lwgv.sourceforge.net/
The following Biostar question also have many good answers:
•
written
by
Istvan Albert
+1 for pointing out that this is hard to Google. I tried myself and failed.
I have found that IGV (linked by @Istvan) and the UCSC genome browser are the most full-featured and the easiest browsers to use.
IGV is a java (or java webstart) application.
UCSC is a web-based browser where you either upload your own data or tell it where to find data on your own server.
Both will support BED and WIG among other formats.
Ensembl (http://www.ensembl.org) also supports upload and attaching remote data for many different formats. For more detailed information please have a look at http://www.ensembl.org/info/website/upload/index.html.
For .bed file, you can simply use xxd -b file.bed to view the content.
while this might be disguised as useful, it's not. xxd is a hexdump viewer and completely useless in this case.
Log in to answer this question.
