Question: Privacy of data
gravatar for elihuixu
13 days ago by
elihuixu20 wrote:

To whom it may concern,

I am Huiwen Xu a PhD student from the University of Granada (Spain; We are studying the role of exercise and brown adipose tissue on gut microbiota in young healthy adults. We are very intersting in the use of your Galaxy software, however we have some points that we would like to discuss with you:

We know that other softwares (for instance U-search) have a high percentage of error when the files are integrated. Do you have some information about what is the percentage of error in the process to integrate the data in one unique file? We were wondering if we used Galaxy unploading the data to the cloud, if our data remains unvailable for the rest of users. Or our data become accesible for everyone? Our ethical comitté does not allow to share any information of our project. Both points are very important to us. Otherwise, we will not be able to use your software to prepare our manuscripts

Best regards,

Huiwen Xu.

Profith Research Group

ADD COMMENTlink modified 10 days ago by Bjoern Gruening4.9k • written 13 days ago by elihuixu20
gravatar for Martin Čech
13 days ago by
Martin Čech ♦♦ 4.4k
United States
Martin Čech ♦♦ 4.4k wrote:

I am not sure I understand what you mean by 'error percentage' but I believe the basic rule for data privacy in Galaxy is that you should put the security on different level than Galaxy e.g. on a VM/docker host and run Galaxy only within the container with local data.

This is a complex problem though, so if you describe your target workflow deeper we might be able to give you more advice.

ADD COMMENTlink written 13 days ago by Martin Čech ♦♦ 4.4k

Thank you for your reply,

With "Error percentage" I meant that for example when we used U-seach we can see that only the 53.32% of the total had been merged. So, my question is what percentage of data merged can be obtained with Galaxy.

Best Regards,


ADD REPLYlink modified 9 days ago by Jennifer Hillman Jackson24k • written 9 days ago by elihuixu20

Hello - How data will process through any workflow depends in the original data content, how it is prepared, and the tools/parameters used. Most Galaxy tools are wrappers around 3rd party open source tools. You can review/test out those we recommend for this type of analysis at a public Galaxy server, your own Galaxy server, or line-command.

All Galaxy tutorials:

Specifically, please see:

Thanks! Jen, Galaxy team

ADD REPLYlink written 8 days ago by Jennifer Hillman Jackson24k

I am sorry but I still do not understand the question. What does it mean that 'data have been merged'?

ADD REPLYlink written 7 days ago by Martin Čech ♦♦ 4.4k
gravatar for Bjoern Gruening
10 days ago by
Bjoern Gruening4.9k
Bjoern Gruening4.9k wrote:

Hi Huiwen,

I agree with Martin that if you need to deal with legal issues and patient data for example you are probably not allowed to upload your data to your cloud. But to answer your question a little bit more concrete, uploaded data can not be seen by any other user than yourself. You are the admin of your data and you can fine-tune access right on your data. By default Galaxy is really strict and is protecting your data. So the question is really what are you restrictions, which level of privacy do you need to guarantee?



ADD COMMENTlink written 10 days ago by Bjoern Gruening4.9k

Thank you very much for your reply, that is what I wanted to know about the privacy.

Best Regards,


ADD REPLYlink written 9 days ago by elihuixu20

I would like to double down here and repeat that Galaxy should not be perceived as a privacy or security layer to your data. I recommend setting up your security at a different level.

ADD REPLYlink written 7 days ago by Martin Čech ♦♦ 4.4k
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