search

maximilianh / cellBrowser

main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datasets, http://cellbrowser.rtfd.org
https://github.com/ucscGenomeBrowser/cellBrowser/
GNU General Public License v3.0
104 stars 40 forks source link

Exporting mtx format, strange gene values #183

Closed mxposed closed 4 years ago

mxposed commented 4 years ago

Hi,

I've exported matrix from Seurat as .mtx format for the first time, and the resulting gene values in cellbrowser look completely strange. Screen Shot 2020-06-29 at 11 48 49 I've checked the .mtx file manually, the values there seem ok, so I guess it's either in the .bin file or with the javascript handling it, but I don't know how to check it and where to look.

maximilianh commented 4 years ago

Hi Nikolay, thanks for your bug report. Does this cell browser have a public URL?

On Mon, Jun 29, 2020 at 6:51 PM Nikolay Markov notifications@github.com wrote:

Hi,

I've exported matrix from Seurat as .mtx format for the first time, and the resulting gene values in cellbrowser look completely strange. [image: Screen Shot 2020-06-29 at 11 48 49] https://user-images.githubusercontent.com/57878/86033556-ba7ff080-b9fe-11ea-8277-c708e96d56e9.png I've checked the .mtx file manually, the values there seem ok, so I guess it's either in the .bin file or with the javascript handling it, but I don't know how to check it and where to look.

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/maximilianh/cellBrowser/issues/183, or unsubscribe https://github.com/notifications/unsubscribe-auth/AACL4TP73XNL2PPKMJ5BZ23RZDBCTANCNFSM4OLM22XQ .

mxposed commented 4 years ago

No, it does not, unfortunately, but I think I can reproduce it in public space soon