diff --git a/.gitignore b/.gitignore index ae19af6..90097dc 100644 --- a/.gitignore +++ b/.gitignore @@ -167,3 +167,4 @@ cython_debug/ .*~ .DS_Store +sample_data/*/*/crashs diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/affine_t1_to_template/t1_to_template_affine.mat b/sample_data/ashs_pmc_alveus/subj02/ashs/affine_t1_to_template/t1_to_template_affine.mat new file mode 100755 index 0000000..4444940 --- /dev/null +++ b/sample_data/ashs_pmc_alveus/subj02/ashs/affine_t1_to_template/t1_to_template_affine.mat @@ -0,0 +1,4 @@ +0.957721 0.0381103 0.0271213 5.05427 +-0.00325824 0.982826 -0.205419 -29.2906 +-0.0230343 0.143985 1.00653 -14.9662 +0 0 0 1 diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/final/subj02_left_lfseg_heur.nii.gz b/sample_data/ashs_pmc_alveus/subj02/ashs/final/subj02_left_lfseg_heur.nii.gz new file mode 100755 index 0000000..65ab089 Binary files /dev/null and b/sample_data/ashs_pmc_alveus/subj02/ashs/final/subj02_left_lfseg_heur.nii.gz differ diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/final/subj02_right_lfseg_heur.nii.gz b/sample_data/ashs_pmc_alveus/subj02/ashs/final/subj02_right_lfseg_heur.nii.gz new file mode 100755 index 0000000..dcbd8f8 Binary files /dev/null and b/sample_data/ashs_pmc_alveus/subj02/ashs/final/subj02_right_lfseg_heur.nii.gz differ diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/flirt_t2_to_t1/flirt_t2_to_t1.mat b/sample_data/ashs_pmc_alveus/subj02/ashs/flirt_t2_to_t1/flirt_t2_to_t1.mat new file mode 100755 index 0000000..6730026 --- /dev/null +++ b/sample_data/ashs_pmc_alveus/subj02/ashs/flirt_t2_to_t1/flirt_t2_to_t1.mat @@ -0,0 +1,4 @@ +0.999962 -0.00839422 -0.0022024 -0.302938 +0.00835345 0.999805 -0.0179078 -0.0370463 +0.00235229 0.0178887 0.999837 -1.40911 +0 0 0 1 diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/flirt_t2_to_t1/flirt_t2_to_t1_inv.mat b/sample_data/ashs_pmc_alveus/subj02/ashs/flirt_t2_to_t1/flirt_t2_to_t1_inv.mat new file mode 100755 index 0000000..ecd3c6c --- /dev/null +++ b/sample_data/ashs_pmc_alveus/subj02/ashs/flirt_t2_to_t1/flirt_t2_to_t1_inv.mat @@ -0,0 +1,4 @@ +0.999963 0.00835346 0.00235229 0.306551 +-0.00839422 0.999804 0.0178887 0.0597033 +-0.0022024 -0.0179078 0.999837 1.40755 +0 0 0 1 diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/mprage.nii.gz b/sample_data/ashs_pmc_alveus/subj02/ashs/mprage.nii.gz new file mode 100644 index 0000000..fbf1759 Binary files /dev/null and b/sample_data/ashs_pmc_alveus/subj02/ashs/mprage.nii.gz differ diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/tse_native_chunk_left.nii.gz b/sample_data/ashs_pmc_alveus/subj02/ashs/tse_native_chunk_left.nii.gz new file mode 100644 index 0000000..cb56e59 Binary files /dev/null and b/sample_data/ashs_pmc_alveus/subj02/ashs/tse_native_chunk_left.nii.gz differ diff --git a/sample_data/ashs_pmc_alveus/subj02/ashs/tse_native_chunk_right.nii.gz b/sample_data/ashs_pmc_alveus/subj02/ashs/tse_native_chunk_right.nii.gz new file mode 100644 index 0000000..5326325 Binary files /dev/null and b/sample_data/ashs_pmc_alveus/subj02/ashs/tse_native_chunk_right.nii.gz differ diff --git a/sample_data/ashs_pmc_alveus/subj02/readme.txt b/sample_data/ashs_pmc_alveus/subj02/readme.txt new file mode 100644 index 0000000..674e513 --- /dev/null +++ b/sample_data/ashs_pmc_alveus/subj02/readme.txt @@ -0,0 +1 @@ +This folder contains ASHS output with ASHS PMC atlas for ADNI participant 003_S_4441 timepoint 2021-04-08. diff --git a/sample_data/035_S_4082_2011-06-28/affine_t1_to_template/t1_to_template_affine.mat b/sample_data/ashs_pmc_t1/subj01/ashs/affine_t1_to_template/t1_to_template_affine.mat similarity index 100% rename from sample_data/035_S_4082_2011-06-28/affine_t1_to_template/t1_to_template_affine.mat rename to sample_data/ashs_pmc_t1/subj01/ashs/affine_t1_to_template/t1_to_template_affine.mat diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_000.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_000.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_000.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_000.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_001.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_001.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_001.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_001.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_002.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_002.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_002.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_002.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_007.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_007.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_007.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_007.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_009.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_009.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_009.nii.gz rename to 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a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_012.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_012.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_012.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_012.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_013.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_013.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_013.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_013.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_014.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_014.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_014.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_014.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_016.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_016.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_016.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_016.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_017.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_017.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_017.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_017.nii.gz diff --git a/sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_020.nii.gz b/sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_020.nii.gz similarity index 100% rename from sample_data/035_S_4082_2011-06-28/bootstrap/fusion/posterior_corr_usegray_right_020.nii.gz rename to sample_data/ashs_pmc_t1/subj01/ashs/bootstrap/fusion/posterior_corr_usegray_right_020.nii.gz diff --git a/sample_data/ashs_pmc_t1/subj01/readme.txt b/sample_data/ashs_pmc_t1/subj01/readme.txt new file mode 100644 index 0000000..1951e10 --- /dev/null +++ b/sample_data/ashs_pmc_t1/subj01/readme.txt @@ -0,0 +1 @@ +This folder contains partial ASHS output with 2023 ASHS-T1 PMC atlas for ADNI participant 035_S_4082 timepoint 2011-06-28