Hi! I am new to LEfSe and the Galaxy platform so I apologize in advance if these have already been addressed elsewhere (I am posting because I have not been able to find answers).
I am using the Galaxy webpage to conduct LEfSe analyses, and am wondering if it is possible to download the results of the analysis in a format that can be read by other applications (e.g., a .txt or .csv file). When I try to download the results of step B) LDA effect size, the file has the extension “.lefse_internal_res” and I cannot open it.
Secondly, when I attempt to perofrm step C) Visualize LEfSe results, I obtain the following error:
“Traceback (most recent call last):
File “/shed_tools/testtoolshed.g2.bx.psu.edu/repos/george-weingart/lefse/a6284ef17bf3/lefse/./plot_res.py”, line 151, in
else: plot_histo_hor(params[‘output_file’],params,data,len(data[‘cls’]) == 2)
File “/shed_tools/testtoolshed.g2.bx.psu.edu/repos/george-weingart/lefse/a6284ef17bf3/lefse/./plot_res.py”, line 54, in plot_histo_hor
if bcl: data[‘rows’].sort(key=lambda ab: fabs(float(ab[3]))*(cls.index(ab[2])2-1))
File “/shed_tools/testtoolshed.g2.bx.psu.edu/repos/george-weingart/lefse/a6284ef17bf3/lefse/./plot_res.py”, line 54, in
if bcl: data[‘rows’].sort(key=lambda ab: fabs(float(ab[3]))(cls.index(ab[2])*2-1))
ValueError: could not convert string to float: not”
The option to report the error via the webpage is not working, so I wanted to post it here instead.
Thank you in advance for any help you can provide!
Best,
Fran