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Let users optionally derive bulk statistics of the data points belonging to each feature #293

Merged
merged 55 commits into from
Nov 7, 2023
Merged

Let users optionally derive bulk statistics of the data points belonging to each feature #293

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4d0e9d2
added optional function to derive bulk statistics of segmented features
May 23, 2023
796d1e3
some fixes
May 23, 2023
58dca76
fixed the saving of percentiles for each feature in dataframe
May 25, 2023
fc636d6
black formatting
May 25, 2023
a3cd532
black formatting
May 25, 2023
d642596
added documentation of new output columns
Jun 5, 2023
0b28766
added csv
Jun 5, 2023
a585359
added tests, example, and modified documentation
Jun 5, 2023
3b570a4
merged in latest changes from RC_v1.5.0 and solved merge conflict
Jun 5, 2023
a265c16
and black formatting again
Jun 5, 2023
b577f22
modified example to avoid error when grouping pd.DataFrame
Jun 5, 2023
d359c44
addressed Kolyas review points
Jun 8, 2023
5dd3ba2
solve merge conflict and merge in latest changes v1.5.0
Aug 21, 2023
d81a4f2
changed get_statistics according to Wills approach
Aug 21, 2023
18b3cfd
allow to give functions that have array-like output or require input …
Aug 22, 2023
4942d9a
some fixes for implementation in segmentation_timestep
Aug 22, 2023
86dbabf
allow input parameter for all given functions and calculate ncells wi…
Aug 23, 2023
29f6830
fixes test_utils
Aug 23, 2023
3291179
added function for off-line calculation of bulk statistics
Aug 24, 2023
aefb6d6
implement bulk statistics in feature detection as well
Aug 25, 2023
165cc74
add example notebooks
Aug 25, 2023
ced3997
added two more example notebooks
Aug 28, 2023
0abc765
fixed test issues and added a better unit test
Aug 28, 2023
02037ab
black formatting
Aug 28, 2023
6712b35
fixed issue in test_bulk_statistics()
Aug 28, 2023
275ff9b
fixed notebook and test failure
Aug 28, 2023
7ac006f
formatting
Aug 28, 2023
e0cad23
Fix indexing of get_statistics results
w-k-jones Oct 7, 2023
cc8932a
merge in RC_v1.5.x and solve merge conflict in tobac/utils/__init__.py
Oct 9, 2023
21ab402
Update tobac/utils/general.py
JuliaKukulies Oct 11, 2023
708e7f2
Update tobac/utils/general.py
JuliaKukulies Oct 11, 2023
593d6d6
Update tobac/segmentation.py
JuliaKukulies Oct 11, 2023
7bdabe6
Fixed some of Wills suggestions
Oct 11, 2023
d39e1e6
Merge branch 'feature_statistics' of https://github.com/JuliaKukulies…
Oct 11, 2023
3f9d737
replace input parameter name for func_dict with 'statistic'
Oct 11, 2023
ce5c7d0
fixed tests and formatting
Oct 11, 2023
77a6d55
fixed example notebooks
Oct 11, 2023
296dafa
move code for statistics computation to end of feature detection outs…
Oct 11, 2023
e9c4212
avoid code duplicates by using functools.partial
Oct 11, 2023
26a1e02
black formatting
Oct 11, 2023
9c8b01b
added notebooks for RTD page
Oct 11, 2023
be432c4
fixed inpu parameter name change here as well
Oct 11, 2023
0f43cca
create submodule and fixed Union typehints
Oct 12, 2023
bb5d909
black formatting, fixed imports and init files for utils
Oct 12, 2023
9607b4d
addressed Seans comments for documentation
Oct 12, 2023
67b383f
fixed import as functions moved to new submodule
Oct 12, 2023
1c84353
Update tobac/segmentation.py
JuliaKukulies Oct 25, 2023
8c6d670
Update path to zenodo files in notebooks
w-k-jones Oct 25, 2023
838357f
Update tobac/utils/bulk_statistics.py
JuliaKukulies Nov 1, 2023
def442a
Fix initial features being missed and wrong dtype for result datafram…
w-k-jones Nov 2, 2023
8f8dea5
Fix setting with copy warnings
w-k-jones Nov 2, 2023
bccab49
Fix merge conflict
w-k-jones Nov 2, 2023
80ef32c
updated zenodo paths in these new notebooks as well
Nov 7, 2023
09adaf2
fixed bug in transform_featurepoints where feature IDs are converted …
Nov 7, 2023
55f1d66
formatting
Nov 7, 2023
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10 changes: 10 additions & 0 deletions doc/bulk_statistics/index.rst
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Original file line number Diff line number Diff line change
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##########################
Compute bulk statistics
##########################

.. toctree::
:maxdepth: 2

notebooks/compute_statistics_during_feature_detection_example
notebooks/compute_statistics_during_segmentation_example
notebooks/compute_statistics_postprocessing_example
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