AUTHORS.rst
CONTRIBUTING.rst
MANIFEST.in
NOTICE
README.rst
requirements.txt
setup.cfg
setup.py
versioneer.py
data/examples/.DS_Store
data/examples/gtab.pkl
data/examples/003/.DS_Store
data/examples/003/anat/CorpusCallosum_dwi.nii.gz
data/examples/003/anat/CorpusCallosum_t1wmask.nii.gz
data/examples/003/anat/aniso_power_tmp.nii.gz
data/examples/003/anat/aniso_power_tmpatlas_in_dwi.nii.gz
data/examples/003/anat/deep_brain_mask.nii.gz
data/examples/003/anat/example_func.nii.gz
data/examples/003/anat/example_func2highres.mat
data/examples/003/anat/example_func2highres_fast_wmedge.nii.gz
data/examples/003/anat/example_func2highres_fast_wmseg.nii.gz
data/examples/003/anat/example_func2highres_init.mat
data/examples/003/anat/example_func2standard.mat
data/examples/003/anat/highres2standard.mat
data/examples/003/anat/highres2standard.nii.gz
data/examples/003/anat/highres2standard_2.nii.gz
data/examples/003/anat/highres2standard_nonlinear.nii.gz
data/examples/003/anat/highres2standard_test_apply_warp.nii.gz
data/examples/003/anat/highres2standard_warp.nii.gz
data/examples/003/anat/highres2standard_warp_inv.nii.gz
data/examples/003/anat/mean_B0_bet_mask_tmp.nii.gz
data/examples/003/anat/mean_B0_bet_mask_tmp_merged.nii.gz
data/examples/003/anat/precuneous2highres.nii.gz
data/examples/003/anat/precuneous_thr_bin.nii.gz
data/examples/003/anat/result_register_node.pklz
data/examples/003/anat/standard2highres.mat
data/examples/003/anat/sub-003_T1w.nii.gz
data/examples/003/anat/sub-003_T1w_brain.nii.gz
data/examples/003/anat/sub-003_T1w_reor-RAS_res-2mm_tmp.nii.gz
data/examples/003/anat/sub-003_T1w_to_MNI152_T1_2mm.log
data/examples/003/anat/sub-003_T1w_to_MNI152_T1_2mm_brain.log
data/examples/003/anat/sub-003_T1w_to_MNI152_T1_brain_2mm.log
data/examples/003/anat/sub-003_ses-01_task-rest_bold.nii.gz
data/examples/003/anat/t1w_aligned_mni.nii.gz
data/examples/003/anat/t1w_brain.nii.gz
data/examples/003/anat/t1w_brain_mask.nii.gz
data/examples/003/anat/t1w_brain_to_MNI152_T1_2mm.log
data/examples/003/anat/t1w_csf.nii.gz
data/examples/003/anat/t1w_csf_mask_dwi.nii.gz
data/examples/003/anat/t1w_csf_mask_dwi_bin.nii.gz
data/examples/003/anat/t1w_gm.nii.gz
data/examples/003/anat/t1w_gm_in_dwi.nii.gz
data/examples/003/anat/t1w_gm_in_dwi_bin.nii.gz
data/examples/003/anat/t1w_in_dwi.nii.gz
data/examples/003/anat/t1w_seg_mixeltype.nii.gz
data/examples/003/anat/t1w_seg_pve_0.nii.gz
data/examples/003/anat/t1w_seg_pve_1.nii.gz
data/examples/003/anat/t1w_seg_pve_2.nii.gz
data/examples/003/anat/t1w_seg_pveseg.nii.gz
data/examples/003/anat/t1w_seg_seg.nii.gz
data/examples/003/anat/t1w_vent_csf_in_dwi.nii.gz
data/examples/003/anat/t1w_vent_mask_dwi.nii.gz
data/examples/003/anat/t1w_wm.nii.gz
data/examples/003/anat/t1w_wm_edge.nii.gz
data/examples/003/anat/t1w_wm_gm_int_in_dwi.nii.gz
data/examples/003/anat/t1w_wm_in_dwi.nii.gz
data/examples/003/anat/t1w_wm_in_dwi_bin.nii.gz
data/examples/003/anat/t1w_wm_thr.nii.gz
data/examples/003/anat/tensor_fa.nii.gz
data/examples/003/anat/test_segment_t1w_mixeltype.nii.gz
data/examples/003/anat/test_segment_t1w_pve_0.nii.gz
data/examples/003/anat/test_segment_t1w_pve_1.nii.gz
data/examples/003/anat/test_segment_t1w_pve_2.nii.gz
data/examples/003/anat/test_segment_t1w_pveseg.nii.gz
data/examples/003/anat/test_segment_t1w_seg.nii.gz
data/examples/003/anat/vent_mask_mni.nii.gz
data/examples/003/anat/vent_mask_t1w.nii.gz
data/examples/003/dmri/.DS_Store
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data/examples/003/dmri/gm_mask_dmri.nii.gz
data/examples/003/dmri/seeding_mask.nii.gz
data/examples/003/dmri/sub-003_b0_brain_mask.nii.gz
data/examples/003/dmri/sub-003_dwi.bval
data/examples/003/dmri/sub-003_dwi.bvec
data/examples/003/dmri/sub-003_dwi.json
data/examples/003/dmri/sub-003_dwi.nii.gz
data/examples/003/dmri/warped_dw_20220121_021939_6b4e1f4b-1c64-438b-bc47-06283bb39ded.nii.gz
data/examples/003/dmri/warped_dw_20220121_070623_f4237923-f286-41e6-bd2c-54e08a1d09bc.nii.gz
data/examples/003/dmri/warped_dw_20220122_134612_1496004f-d51d-49ae-adf1-d64f737422c7.nii.gz
data/examples/003/dmri/warped_dw_20220122_220012_792f2b5e-95f0-4ff9-97cf-3bb3e4f25880.nii.gz
data/examples/003/dmri/warped_dw_20220122_232455_d24cda99-648e-42c0-885e-ecc4106b09f4.nii.gz
data/examples/003/dmri/warped_dw_20220123_010100_8c05916a-0b6b-4eda-8753-08d4c7faa337.nii.gz
data/examples/003/dmri/warped_dw_20220202_024008_a41822bb-7d64-45cb-a297-5748b57786d1.nii.gz
data/examples/003/dmri/warped_dw_20220213_011629_6aaa0133-c38d-47fd-8bd8-f9d88fdbef2a.nii.gz
data/examples/003/dmri/whole_brain_cluster_labels_PCA200_dwi_track.nii.gz
data/examples/003/dmri/whole_brain_cluster_labels_PCA200_dwi_track_wmgm_int.nii.gz
data/examples/003/dmri/wm_mask_dmri.nii.gz
data/examples/003/dmri/dmri_reg/DSN/warped_dw_20220122_234544_49d81f95-0075-4000-8483-dfeb9fe4e519.nii.gz
data/examples/003/dmri/intermediate/T1w2B0.mat
data/examples/003/dmri/intermediate/b02T1w.mat
data/examples/003/dmri/intermediate/brain.nii.gz
data/examples/003/dmri/intermediate/brain_mask.nii.gz
data/examples/003/dmri/intermediate/csf_mask.nii.gz
data/examples/003/dmri/intermediate/gm_mask.nii.gz
data/examples/003/dmri/intermediate/orig.nii.gz
data/examples/003/dmri/intermediate/sub-003_b0.nii.gz
data/examples/003/dmri/intermediate/sub-003_b02T1w.nii.gz
data/examples/003/dmri/intermediate/sub-003_b0_brain.nii.gz
data/examples/003/dmri/intermediate/sub-003_dwi.json
data/examples/003/dmri/intermediate/sub-003_dwi.nii.gz
data/examples/003/dmri/intermediate/wm_mask.nii.gz
data/examples/003/dmri/tractography/streamlines_t1w_Default_tmpz8xl3x9q_csd_curv[0.1_0.2]step[40_30]tracktype-particle_traversal-prob_minlength-10.trk
data/examples/003/func/sub-003_ses-01_task-rest_bold.json
data/examples/003/func/sub-003_ses-01_task-rest_bold.nii.gz
data/examples/003/test_out/.DS_Store
data/examples/003/test_out/003/.DS_Store
data/examples/003/test_out/003/dwi/.DS_Store
data/examples/003/test_out/003/dwi/bvecs_reor.bvec
data/examples/003/test_out/003/dwi/sub-003_T1w_reor-RAS_res-2mm.nii.gz
data/examples/003/test_out/003/dwi/sub-003_dwi_reor-RAS_res-2mm.nii.gz
data/examples/003/test_out/003/dwi/whole_brain_cluster_labels_PCA200/whole_brain_cluster_labels_PCA200_reor-RAS_nores-2mm.nii.gz
data/examples/003/test_out/003/dwi/whole_brain_cluster_labels_PCA200/parcellations/003_parcels_masked.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/bvecs_reor.bvec
data/examples/003/test_out/test_check_orient_and_dims/iso_eddy_corrected_data_denoised_LAS_bvecs_reor.bvec
data/examples/003/test_out/test_check_orient_and_dims/iso_eddy_corrected_data_denoised_LAS_reor-RAS_res-1mm.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/iso_eddy_corrected_data_denoised_RAS_noreor-RAS_res-1mm.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/sub-003_T1w_LAS_reor-RAS_res-2mm.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/sub-003_T1w_RAS_reor-RAS_res-2mm.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/anat_LAS/sub-003_T1w_LAS.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/anat_RAS/sub-003_T1w_RAS.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/dmri_LAS/bvec.orig.bvec
data/examples/003/test_out/test_check_orient_and_dims/dmri_LAS/bvecs_reor.bvec
data/examples/003/test_out/test_check_orient_and_dims/dmri_LAS/iso_eddy_corrected_data_denoised_LAS.nii.gz
data/examples/003/test_out/test_check_orient_and_dims/dmri_RAS/bvec.trans.bvec
data/examples/003/test_out/test_check_orient_and_dims/dmri_RAS/bvecs_reor.bvec
data/examples/003/test_out/test_check_orient_and_dims/dmri_RAS/iso_eddy_corrected_data_denoised_RAS.nii.gz
data/examples/003/test_out/test_match_target_vox_res/sub-003_T1w_pre_res_res-2mm.nii.gz
data/examples/003/test_out/test_match_target_vox_res/sub-003_T1w_pre_res_res-2mm_res-2mm.nii.gz
data/examples/003/test_out/test_match_target_vox_res/sub-003_dwi_pre_res_res-1mm.nii.gz
data/examples/003/test_out/test_match_target_vox_res/sub-003_dwi_pre_res_res-1mm_nores-1mm.nii.gz
data/examples/003/test_out/test_reorient_dwi/bval.bval
data/examples/003/test_out/test_reorient_dwi/bvec.bvec
data/examples/003/test_out/test_reorient_dwi/iso_eddy_corrected_data_denoised_LAS.nii.gz
data/examples/003/test_out/test_reorient_dwi/iso_eddy_corrected_data_denoised_RAS.nii.gz
data/examples/003/test_out/test_reorient_dwi/output/iso_eddy_corrected_data_denoised_RAS_bvecs_reor.bvec
data/examples/003/test_out/test_reorient_dwi/output/iso_eddy_corrected_data_denoised_RAS_reor-RAS.nii.gz
data/examples/003/test_out/test_reorient_img/sub-003_T1w_LAS.nii.gz
data/examples/003/test_out/test_reorient_img/sub-003_T1w_RAS.nii.gz
data/examples/003/test_out/test_reorient_img/output_LAS/sub-003_T1w_LAS_reor-RAS.nii.gz
data/examples/003/test_out/test_reorient_img/output_RAS/sub-003_T1w_RAS_reor-RAS.nii.gz
data/examples/BIDS/.DS_Store
data/examples/BIDS/sub-25659/.DS_Store
data/examples/BIDS/sub-25659/ses-1/.DS_Store
data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_desc-brain_mask.json
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data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_desc-preproc_T1w.json
data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_desc-preproc_T1w.nii.gz
data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_dseg.nii.gz
data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_label-CSF_probseg.nii.gz
data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_label-GM_probseg.nii.gz
data/examples/BIDS/sub-25659/ses-1/anat/sub-25659_label-WM_probseg.nii.gz
data/examples/BIDS/sub-25659/ses-1/dwi/final_bval.bval
data/examples/BIDS/sub-25659/ses-1/dwi/final_bvec.bvec
data/examples/BIDS/sub-25659/ses-1/dwi/final_preprocessed_dwi.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/002_parcels_resampled2roimask_pDMN_3_bin.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/pDMN_3_bin_mask.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_AROMAnoiseICs.csv
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_desc-MELODIC_mixing.tsv
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_desc-confounds_regressors.json
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_desc-confounds_regressors.tsv
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_boldref.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_desc-brain_mask.json
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_desc-brain_mask.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_desc-preproc_bold.json
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_desc-preproc_bold.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_desc-smoothAROMAnonaggr_bold.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-MNI152NLin6Asym_desc-smoothAROMAnonaggr_bold_short.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-T1w_boldref.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-T1w_desc-brain_mask.json
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-T1w_desc-brain_mask.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-T1w_desc-preproc_bold.json
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-T1w_desc-preproc_bold.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/sub-25659_ses-1_task-rest_space-T1w_desc-preproc_bold_mask.nii.gz
data/examples/BIDS/sub-25659/ses-1/func/whole_brain_cluster_labels_PCA200.nii_Default_parcels.nii.gz
data/examples/miscellaneous/.DS_Store
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data/examples/miscellaneous/002_rsn-Default_model-cov_raw_mat.npy
data/examples/miscellaneous/002_rsn-Default_net_ts.npy
data/examples/miscellaneous/002_rsn-Default_nodetype-parc_model-cov_thrtype-PROP_thr-0.95_net_metrics.csv
data/examples/miscellaneous/002_rsn-Default_nodetype-parc_model-sps_thrtype-PROP_thr-0.94.txt
data/examples/miscellaneous/002_rsn-Default_nodetype-parc_model-sps_thrtype-PROP_thr-0.94.txt.pkl
data/examples/miscellaneous/002_rsn-Default_nodetype-parc_model-sps_thrtype-PROP_thr-0.94.txt.ssv
data/examples/miscellaneous/002_rsn-Default_nodetype-parc_model-sps_thrtype-PROP_thr-0.94.txt_pruned.pkl
data/examples/miscellaneous/002_rsn-Default_nodetype-parc_model-sps_thrtype-PROP_thr-0.94.txt_pruned.ssv
data/examples/miscellaneous/Default_func_coords_wb.pkl
data/examples/miscellaneous/Default_func_labelnames_wb.pkl
data/examples/miscellaneous/graph_sub-002_modality-func_rsn-Default_model-cov_template-MNI152_T1_nodetype-spheres-2mm_tol-2fwhm_hpass-0.1Hz_thrtype-PROP_thr-0.95.npy
data/examples/miscellaneous/metrics_metrics_sub-0021001_rsn-Default_nodetype-parc_model-csa_thrtype-PROP_thr-0.05.csv
data/examples/miscellaneous/metrics_sub-0021001_modality-dwi_nodetype-parc_model-csa_thrtype-PROP_thr-0.2.csv
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data/examples/miscellaneous/metrics_sub-0021001_nodetype-parc_model-csd_thrtype-PROP_thr-0.15.csv
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data/examples/miscellaneous/metrics_sub-0021001_nodetype-parc_model-csd_thrtype-PROP_thr-0.17.csv
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data/examples/miscellaneous/metrics_sub-0021001_nodetype-parc_model-tensor_thrtype-PROP_thr-0.05.csv
data/examples/miscellaneous/metrics_sub-0021001_nodetype-parc_model-tensor_thrtype-PROP_thr-0.06.csv
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data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csa_thrtype-PROP_thr-0.06.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csa_thrtype-PROP_thr-0.07.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csa_thrtype-PROP_thr-0.08.csv
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data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csa_thrtype-PROP_thr-0.1.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csd_thrtype-PROP_thr-0.05.csv
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data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csd_thrtype-PROP_thr-0.07.csv
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data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-csd_thrtype-PROP_thr-0.1.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-tensor_thrtype-PROP_thr-0.05.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-tensor_thrtype-PROP_thr-0.06.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-tensor_thrtype-PROP_thr-0.07.csv
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data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-tensor_thrtype-PROP_thr-0.09.csv
data/examples/miscellaneous/metrics_sub-0021001_rsn-Default_nodetype-parc_model-tensor_thrtype-PROP_thr-0.1.csv
data/examples/miscellaneous/metrics_sub-OAS31172_ses-d0407_topology_auc_clean.csv
data/examples/miscellaneous/pDMN_3_bin.nii.gz
data/examples/miscellaneous/rMFG_node6mm.nii.gz
data/examples/miscellaneous/streamlines_model-csd_nodetype-parc_tracktype-local_traversal-prob_minlength-0.trk
data/examples/miscellaneous/streamlines_model-csd_nodetype-parc_tracktype-particle_traversal-prob_minlength-10.trk
data/examples/miscellaneous/sub-0021001_modality-dwi_rsn-Default_model-csa_template-MNI152_T1_nodetype-parc_tt-particle_traversal-prob_ml-10_thrtype-PROP_thr-0.05.npy
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data/examples/miscellaneous/sub-0021001_modality-dwi_rsn-Default_model-csa_template-MNI152_T1_nodetype-parc_tt-particle_traversal-prob_ml-10_thrtype-PROP_thr-0.09.npy
data/examples/miscellaneous/sub-0021001_modality-dwi_rsn-Default_model-csa_template-MNI152_T1_template-MNI152_T1_nodetype-parc_tt-particle_traversal-prob_ml-10_thrtype-PROP_thr-0.1.npy
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data/examples/miscellaneous/sub-0021001_modality-dwi_rsn-Default_model-csd_template-MNI152_T1_nodetype-parc_tt-particle_traversal-prob_ml-10_thrtype-PROP_thr-0.09.npy
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data/examples/miscellaneous/sub-0021001_rsn-Default_model-sps_0.19densparc_mm_pruned_mat.ssv
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data/examples/miscellaneous/triple_net_ICA_overlap_3_sig_bin.nii.gz
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