Visualize bigwig, bedgraph, wig files on Genome Browser?

Question

[salamandra]

Hi,

I tried to visualize on genome browser a bigwig file that i created from a bam file (using the bamCoverage tool). When uploading the file it gives the error: "Error File 'something.bw' - It appears that you are directly uploading binary data of type bigWig. Custom tracks of this type require the files to be accessible by public http/https/ftp, and file URLs must be passed as the bigDataUrl setting on a "track" line."

As sugested online I tried to upload to both googleDrive and dropbox and then provide the URL, but then it gave the errors: " Error Couldn't open https://www.dropbox.com/blablabla=0" " Error Unrecognized format line 1 of https://drive.google.com/blablabladrive_web:"

Then I tried with bedgraph (.bdg) format, but can only see the track as bars..it doesn't show peaks Already tried to convert from bigwig to wig and use the wig fie, but again can only see the track as bars, no peaks.

How to solve this? Please, help!

[Pierre Lindenbaum]

duplicate of : Visualizing bigwig files in UCSC genome browser ; Visualizing Chip-Seq Data Using Ucsc [Bigwig]

[salamandra]

well, the links you provided say "Now you have the bigwig file so lets upload it to ucsc. For that, just copy it on your local webserver, where you can get the link to the file like https://projects/files/file.bw". I don't have a server, does it mean I can't upload bigwig files to genomebrowser?

Answer 1

[GenoMax]

Take a look at this FAQ from UCSC and the section towards the end that talks about Cyverse. That may be your only option if you can't get your colleagues to set up a web accessible resource for you.

[salamandra]

It worked! Thank you very much!

Answer 2

[Buffo]

Try IGV browser, it works for me.

[salamandra]

really needed i to work with genome browser, cause this is for my colleagues, that only work with genome browser