Glad you liked it. Yes, it targets exactly the users you mentioned. I feel like the documentation is quite high level and detailed with etomo. I feel it excludes users that are either starting or non-coders, so I made this for our facility and it has helped users a lot ot start the basic data processing of serial TEM tomography of plastic sections. I then help them refine the join, etc.
Absolutely love it. Thank you so much for this tutorial, I do have some question though, how do you understand that this data looks good, this what you want, that you does not want.
Hi, Maruko. Sorry I hadn't noticed there was a comment on this video! Thank you so much for the positive feedback. Always good to hear someone is benefiting from the video tutorials! Regarding data quality, when you look at the fiducial model, if eTomo managed to track the patches reliably across the aligned tilt series, the curved lines in the model will be nice and smooth (make sure you always zoom into the model to see how smooth the lines are!). If the lines are bumpy it's and indication (in my experience and understanding, at least) that there were issues with focus, for example, because eTomo didn't manage to track the patches with that much precision across the tilt series. I find that whenever I've had data that looked a bit out of focus (maybe because autofocus parameters were not set correctly in SerialEM), then you get bumpy lines in the fiducial model. I guess with experience on looking at cell ultrastructure by TEM you can tell before processing that the quality/focus is not quite right, so eTomo can't fix bad data, of course! Tomogram quality won't be great if the data is not good! Did that answer your question?
Nice Video! Its helpful for people entering into tomography who are not aware of the process. Thanks for uploading. Looking forward to more videos!
Glad you liked it. Yes, it targets exactly the users you mentioned. I feel like the documentation is quite high level and detailed with etomo. I feel it excludes users that are either starting or non-coders, so I made this for our facility and it has helped users a lot ot start the basic data processing of serial TEM tomography of plastic sections. I then help them refine the join, etc.
Absolutely love it. Thank you so much for this tutorial, I do have some question though, how do you understand that this data looks good, this what you want, that you does not want.
Hi, Maruko. Sorry I hadn't noticed there was a comment on this video! Thank you so much for the positive feedback. Always good to hear someone is benefiting from the video tutorials! Regarding data quality, when you look at the fiducial model, if eTomo managed to track the patches reliably across the aligned tilt series, the curved lines in the model will be nice and smooth (make sure you always zoom into the model to see how smooth the lines are!). If the lines are bumpy it's and indication (in my experience and understanding, at least) that there were issues with focus, for example, because eTomo didn't manage to track the patches with that much precision across the tilt series. I find that whenever I've had data that looked a bit out of focus (maybe because autofocus parameters were not set correctly in SerialEM), then you get bumpy lines in the fiducial model. I guess with experience on looking at cell ultrastructure by TEM you can tell before processing that the quality/focus is not quite right, so eTomo can't fix bad data, of course! Tomogram quality won't be great if the data is not good! Did that answer your question?