antspymm 1.1.1__tar.gz → 1.1.3__tar.gz

{antspymm-1.1.1/antspymm.egg-info → antspymm-1.1.3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: antspymm
-Version: 1.1.1
+Version: 1.1.3
 Summary: multi-channel/time-series medical image processing with antspyx
 Home-page: https://github.com/stnava/ANTsPyMM
 Author: Avants, Gosselin, Tustison, Reardon
@@ -18,10 +18,13 @@ Requires-Dist: dipy
 Requires-Dist: nibabel
 Requires-Dist: scipy
 Requires-Dist: siq
-Requires-Dist: sklearn
+Requires-Dist: scikit-learn
 
 # ANTsPyMM
 
+
+[mapping](https://imgur.com/a/XzpXI3i)
+
 ## processing utilities for timeseries/multichannel images - mostly neuroimaging
 
 the outputs of these processes can be used for data inspection/cleaning/triage
@@ -243,6 +246,13 @@ studycsv = antspymm.generate_mm_dataframe(
     rsf_filenames=[fns[2]])
 studycsv2 = studycsv.dropna(axis=1)
 mmrun = antspymm.mm_csv( studycsv2, mysep='_' )
+
+# aggregate the data after you've run on many subjects
+# studycsv_all would be the vstacked studycsv2 data frames
+zz=antspymm.aggregate_antspymm_results_sdf( studycsv_all, 
+    subject_col='subjectID', date_col='date', image_col='imageID',  base_path=bd, 
+    splitsep='_', idsep='-', wild_card_modality_id=True, verbose=True)
+
 ```
 
 ## NRG example
@@ -426,6 +436,15 @@ for f in folders:
 pdoc -o ./docs antspymm --html
 ```
 
+## ssl error 
+
+if you get an odd certificate error when calling `force_download`, try:
+
+```python
+import ssl
+ssl._create_default_https_context = ssl._create_unverified_context
+``
+
 ## to publish a release
 
 ```

{antspymm-1.1.1 → antspymm-1.1.3}/README.md

@@ -1,5 +1,8 @@
 # ANTsPyMM
 
+
+[mapping](https://imgur.com/a/XzpXI3i)
+
 ## processing utilities for timeseries/multichannel images - mostly neuroimaging
 
 the outputs of these processes can be used for data inspection/cleaning/triage
@@ -221,6 +224,13 @@ studycsv = antspymm.generate_mm_dataframe(
     rsf_filenames=[fns[2]])
 studycsv2 = studycsv.dropna(axis=1)
 mmrun = antspymm.mm_csv( studycsv2, mysep='_' )
+
+# aggregate the data after you've run on many subjects
+# studycsv_all would be the vstacked studycsv2 data frames
+zz=antspymm.aggregate_antspymm_results_sdf( studycsv_all, 
+    subject_col='subjectID', date_col='date', image_col='imageID',  base_path=bd, 
+    splitsep='_', idsep='-', wild_card_modality_id=True, verbose=True)
+
 ```
 
 ## NRG example
@@ -404,6 +414,15 @@ for f in folders:
 pdoc -o ./docs antspymm --html
 ```
 
+## ssl error 
+
+if you get an odd certificate error when calling `force_download`, try:
+
+```python
+import ssl
+ssl._create_default_https_context = ssl._create_unverified_context
+``
+
 ## to publish a release
 
 ```

{antspymm-1.1.1 → antspymm-1.1.3}/antspymm/__init__.py

@@ -56,6 +56,8 @@ from .mm import average_mm_df
 from .mm import get_names_from_data_frame
 from .mm import read_mm_csv
 from .mm import assemble_modality_specific_dataframes
+from .mm import aggregate_antspymm_results
+from .mm import aggregate_antspymm_results_sdf
 from .mm import mc_denoise
 from .mm import mc_reg
 from .mm import dti_reg
@@ -90,3 +92,7 @@ from .mm import collect_blind_qc_by_modality
 from .mm import get_valid_modalities
 from .mm import study_dataframe_from_matched_dataframe
 from .mm import merge_wides_to_study_dataframe
+from .mm import map_scalar_to_labels
+from .mm import template_figure_with_overlay
+from .mm import brainmap_figure
+from .mm import bold_perfusion