search

tischi / fiji-plugin-morphometry

0 stars 1 forks source link

Spindle: Ground truth: Combine manual and automated tables #68

Open tischi opened 5 years ago

tischi commented 5 years ago

@n-dempe

I opened this issue to discuss here things related to that.

Currently I am waiting for example tables from you; then I would try to combine them using an R script. OK?

n-dempe commented 5 years ago

can I leave a csv/excel right here? where is the best to upload the data/sheets?

tischi commented 5 years ago

download links (e.g. dropbox) would be the best I think.

tischi commented 5 years ago

@n-dempe Yes, like this is not so good, because one can publicly see the whole folder structure. Maybe remove that link again..

And also for me this is too complex, because I have to understand all the files :-)

Could you please provide exactly two separate read only download links:

In G-Drive right click on the file and

image

and then I guess select:

image
n-dempe commented 5 years ago

Manual Table https://drive.google.com/file/d/1MOfLxwYiXyznyjVhBuSqasmHZMgeIq3y/view?usp=sharing

Automated tables https://drive.google.com/file/d/1Bld8NvsT5p6pA0sfH_RQhxLSvvflMgQB/view?usp=sharing https://drive.google.com/file/d/1FqZh_Rn_687qgkP7akw3pZ_gCFJaSenY/view?usp=sharing https://drive.google.com/file/d/1k2SORqTz3i3hN1CK8QdoIXM4nQJ-wCfr/view?usp=sharing https://drive.google.com/file/d/1rjKaTcCHA72yuJUAK9x1lmaOHjOr-nK-/view?usp=sharing https://drive.google.com/file/d/1qkG33v8rgB9b68jzHwrroSrbj69BMA2o/view?usp=sharing https://drive.google.com/file/d/1GKiDVRpN88w6ANx7gNMaCEtCNl7bQ1S9/view?usp=sharing

n-dempe commented 5 years ago

is there way to see the version of Spindle Morphometry FIJI is using currently?

tischi commented 5 years ago

Yes, go to the folder ../jars in your Fiji folder. There will be a file called: fiji-plugin-morphometry-version.jar For example on my computer:

$ ls /Applications/Fiji.app/jars/fiji-plugin-morphometry-*
/Applications/Fiji.app/jars/fiji-plugin-morphometry-0.4.15.jar
tischi commented 5 years ago

I looked at the tables! Nice! Did you already write a script yourself that combines the manual and automated tables?

n-dempe commented 5 years ago

No I did not. Thats just manual copy and paste

n-dempe commented 5 years ago

I will check out the version, so I can name it more precisely in the columns.

tischi commented 5 years ago

No I did not. Thats just manual copy and paste

Could you then please post a link here with a "manual only" table? Then I could try to write a script. Not sure I will still get around doing it today though...Otherwise could be fun and good for your career to learn some R and do it yourself!

If you want to learn something useful, you could also look at dplyr:

One of the nicest frameworks for manipulating tables! Definitely worth it!!

You could of course also do everything in python if that's more your thing!