No access to online leffse

Hi,

I have no access to lefse through http://huttenhower.sph.harvard.edu/galaxy/
is there a problem in the server or is it not available any more.

Thanks so much for the help

I also have been unable to access yesterday and today.

Hello,
Thank you for letting us know about this, we’re working on a solution as we speak.
Best,
Meg

1 Like

Hello,
LEfSe should be working again, let me know if you have any continuing issues.
Best,
Meg

Great, thanks! That was quick :slight_smile:

could you please help me with a question related with the analysis?

I am following a post from a while ago but i can not find it was responded https://groups.google.com/g/lefse-users/c/SU2sxI0DIyc/m/xdjro3FSBgAJ
I have6 categories ( 5 treatments plus a treatment with water). I want all of the 5 treatments to be compared against the water treatment, the control.
Similar to what this post asked https://groups.google.com/g/lefse-users/c/SU2sxI0DIyc/m/xdjro3FSBgAJ , i thought that i could use the one-against-all option by putting as ¨reference¨ the water treatment, but there is no way to chose the reference group. is there anyway around?
For instance, would a all-against-all option be a possible option if i include a class with the 6 treatments and then a subclass with two categories , such as treated vs control? would that compare all the treatments against the control?

Hope i have been able to explain myself…

Many thanks in advance for all the help!

1 Like

Hi Iratxez,

Which software do you finally use to compare your five treatment groups with your water control group?

Best,

Bing

Hi,
Apologies for responding late to this. Unfortunately LEfSe doesn’t allow for the specification of a reference group. I’d recommend MaAsLin 2 to run this type of analysis.
Best,
Meg

Thank you for your reply.

I am using the LEfSe and MaAsLin2 at the same time, and find the common significant features identified by both LEfSe and MaAsLin2.