Commit Graph

1338 Commits (887fd7dc72f4eb4a07f7f2bb169ed338ca6cd286)

Author SHA1 Message Date
Primoz 887fd7dc72 Merge branch 'empatica_calculating_features' 2022-07-06 11:53:21 +00:00
Primoz 5a4696c548 Misc. changes 2022-07-06 11:30:18 +00:00
Primoz d2758eef46 Set not NaN sum insted of 0 sum for HRV features windows. 2022-07-06 07:36:35 +00:00
Primoz 2d5d23b615 Testing files change and remove standardization from hrv sensors main files. 2022-07-06 07:35:39 +00:00
Primoz a5480f1369 Few changes during addition to file structure. 2022-07-04 13:00:47 +00:00
Primoz 505c3a86b9 Testing different EDA findPeaks parameters. 2022-06-30 15:15:37 +00:00
Primoz c851ab0763 Fill EDA NaN values where numPeak is zero. Other small changes. 2022-06-21 14:09:49 +00:00
Primoz a8cd16f88c Debugging eda_explorer 2022-06-16 11:32:59 +00:00
Primoz dda4554d46 Various small changes. 2022-06-15 13:57:46 +00:00
Primoz 212cf300f8 Debugging EDA signal - preliminary step for imputation. 2022-06-14 15:09:14 +00:00
Primoz 9ea39dc557 Standardization as a Snakefile's rule enabled for all E4 sensors. 2022-06-13 18:17:30 +00:00
Primoz 402059871f Making standardization as a rule. WIP: done only for BVP. 2022-06-13 14:12:03 +00:00
Primoz 094743244d Added SO feature for sum all rows that are non zero for BVP and IBI sensors. 2022-06-13 10:51:22 +00:00
primoz e1d7607de4 Extraction of additional SO features. Min/max has been changed to nsmallest/nlargest means. 2022-06-10 12:34:48 +00:00
primoz f371249b99 First order features standardization WIP 2022-06-09 13:35:15 +00:00
primoz 64e41cfa35 Second order features standardization in config.yaml. 2022-06-07 10:39:48 +00:00
primoz 2c7ac21465 Added standardization on SO features. 2022-06-06 13:51:15 +00:00
primoz 2acf6ff9fb Exception handling in case of empty ibi. Changes of the method EDA uses in main.py. Other small corrections. 2022-06-03 12:34:36 +00:00
primoz d300f0f8f0 Fixed RAPIDS bug: error when IBI.csv is empty. 2022-06-02 11:43:49 +00:00
Primoz fbf6a77dfc Small misc changes 2022-06-02 06:41:53 +00:00
Primoz 5532043b1f Patching IBI with BVP - completed. 2022-05-25 19:39:47 +00:00
Primoz bb62497ba6 Patching IBI with BVP - selecting appropriate pipeline entry point. WIP 2022-05-24 11:07:18 +00:00
Primoz 2a8f58f5c8 Patching IBI with BVP. WIP 2022-05-20 13:18:45 +00:00
Primoz 1471c86c62 Cr-features version update in rapids venv. 2022-05-13 13:37:12 +00:00
Primoz 6864cfe775 Changes after thorough testing with available data. 2022-05-13 13:35:34 +00:00
Primoz c1564f0cae Changed wrapper method calculate_feature to its newest version (for TEMP and ACC). 2022-05-11 14:21:21 +00:00
Primoz 31e36e7400 Alternating Second order and full segment features corresponding to config settings. 2022-05-11 08:50:15 +00:00
Primoz 9cf9e1fe14 Testing and modifying the code with different E4 data. 2022-05-10 11:36:49 +00:00
Primoz f62a1302dd Cr-features corrections for ACC and TEMP sensors 2022-05-09 11:01:52 +00:00
Primoz 5638367999 Implementation of the second order features. 2022-04-25 13:07:03 +00:00
Primoz 66451160e9 Calculating HRV features with IBI.csv. 2022-04-20 10:44:51 +00:00
= 8c8fe1fec7 Modifications, mostly imports, after changes in cr-features module. 2022-04-19 13:24:46 +00:00
= 075c64d1e5 HRV: changed wrapper calcFeat method with specialized one. 2022-04-14 11:51:53 +00:00
= 3c058e4463 Add option to calculate features within windows and store it in CSV (all sensors). 2022-04-13 13:18:23 +00:00
junos ed5314aa98 Merge remote-tracking branch 'origin/master' 2022-04-12 17:27:25 +02:00
junos 11c64cfc1a Include all participants again. 2022-04-12 17:20:19 +02:00
junos a6a37c7bd9 Drop NaN targets.
This mirrors INNER join in merge_features_and_targets_for_individual_model.py:

data = pd.concat([sensor_features, targets[["target"]]], axis=1, join="inner")
2022-04-12 17:01:49 +02:00
junos 9f5edf1c2b Revert "Add a rule for model baselines."
The example was for a classification rather than regression problem.

This reverts commit 9ab0c8f289.

# Conflicts:
#	rules/models.smk
2022-04-12 16:59:42 +02:00
junos 4ad261fae5 Rename baseline features AGAIN.
Correct other mistakes.
2022-04-12 16:55:01 +02:00
= 74cf4ada1c Cr-feat window length for all empaticas sensors. 2022-04-12 14:00:44 +00:00
junos 9ab0c8f289 Add a rule for model baselines.
Add baselines and helper functions to main models dir.
2022-04-12 14:23:58 +02:00
junos 570d2eb656 Add the file for population model to Snakefile. 2022-04-12 14:11:40 +02:00
junos f5688f6154 Add a rule to merge sensor and baseline features.
And select target as before.
2022-04-08 15:42:04 +02:00
junos b1f356c3f7 Extract a function to be used elsewhere. 2022-04-08 15:36:32 +02:00
junos 7ff3dcf5fc Move and rename target variable. 2022-04-06 18:21:09 +02:00
junos 50c0defca7 Select target columns (no parsing necessary). 2022-04-06 18:16:49 +02:00
junos ac86221662 [WIP] Add a rule to parse targets.
Does nothing for now.
2022-04-06 17:47:03 +02:00
junos baa94c4c4e Correct additional error in feature file naming.
Add the final feature file to the list in Snakefile.
2022-04-06 17:29:17 +02:00
junos d2fbef5234 Merge branch 'labels' of https://repo.ijs.si/junoslukan/rapids into labels
# Conflicts:
#	src/features/phone_esm/straw/preprocess.py
2022-04-05 19:28:37 +02:00
junos d326a1b09d Include the constant directly in main.py. 2022-04-05 19:08:43 +02:00