Forum: Best open source genome browser in 2020
2
gravatar for mrmrwinter
5 days ago by
mrmrwinter20
University of Hull
mrmrwinter20 wrote:

What in your opinion are the bet open source genome browsers available now?

I have used several including JBrowse, Genome Workbench, and Artemis, but find them all clunky and their GUIs dated.

Genious looks very good, but its licence requirement limits distribution of results and outputs, and is ruled out on price.

I have read reviews from several years ago, but would like to know what the community recommends.

Thanks

ADD COMMENTlink modified 2 days ago • written 5 days ago by mrmrwinter20
2

what, my review from 2010 isn't current enough? bah! http://jermdemo.blogspot.com/2010/08/ngs-viewers-reviewed.html

ADD REPLYlink written 5 days ago by Jeremy Leipzig19k

Thanks all. I'm going with IGV

ADD REPLYlink written 2 days ago by mrmrwinter20
2
gravatar for genomax
5 days ago by
genomax92k
United States
genomax92k wrote:

Can you clarify if you mean something else when you say genome browser? IGV or IGB are not in your list.

@dariober's ASCIIGenome: https://github.com/dariober/ASCIIGenome

ADD COMMENTlink modified 5 days ago • written 5 days ago by genomax92k
1
gravatar for Alex Reynolds
5 days ago by
Alex Reynolds31k
Seattle, WA USA
Alex Reynolds31k wrote:

Many in the current suite of browsers make you sit and wait for data to come in and get rendered. WebGL-backed HiGlass and Valis may be contenders for where browsers are headed or need to head.

I have used HiGlass for a couple projects. It supports various dataset formats and is extensible. Not sure how much of Valis is open-sourced, but I think ENCODE has used it or its commercial counterpart.

ADD COMMENTlink modified 5 days ago • written 5 days ago by Alex Reynolds31k
1
gravatar for lieven.sterck
5 days ago by
lieven.sterck8.9k
VIB, Ghent, Belgium
lieven.sterck8.9k wrote:

GenomeView is also free to use (not sure if completely open source) and I kinda like it, does viewing as well as editing (very little do offer the editing these days)

ADD COMMENTlink written 5 days ago by lieven.sterck8.9k
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