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Updates #1

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14c130d
rapids fix [ac]
aichander Aug 7, 2026
c6955f6
small adds [ac]
aichander Aug 7, 2026
9a32dfa
cleanup [ac]
aichander Aug 7, 2026
85d58d9
some figs to the mix [ac]
aichander Aug 8, 2026
4ecff61
updated files list
aichander Aug 13, 2026
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206 changes: 206 additions & 0 deletions 0-metadata_fixer/build_updated_metadata.py
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110 changes: 13 additions & 97 deletions notebooks/get_tissdiss_data.py → 1-build_object/01-get_tissdiss_data.py
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Original file line number Diff line number Diff line change
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files_list = ['Exp00793_w1_No_AR_No_staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w2_No_AR_No_staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w3_No_AR_Vis_staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w4_No_AR_Vis_staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w5_AR_No_Staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w6_AR_No_Staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w7_AR_staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00793_w8_AR_staining_TIS05740-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp00904_w2_CD_AR_NewBlock_TIS05740-001-018_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP1_TIS06385-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP2_TIS06389-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP3_TIS06665-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP4_TIS06664-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP5_TIS06394-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP6_TIS06390-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP7_TIS06384-001_sample_filtered_feature_bc_matrix.h5',
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'Exp942_New_Vis_AR_TIS06615-001-002_sample_filtered_feature_bc_matrix.h5',
'Exp942_Old_Vis_AR_TIS06610-001-001_sample_filtered_feature_bc_matrix.h5',
'Exp980_CST_Stain1_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
'Exp980_No_Stain1_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
'Exp980_No_Stain2_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
'Exp980_VIS_Stain1_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
'Exp980_VIS_Stain2_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
'Exp998_10_MM_Plasmacytoma_TIS06392-001-003_sample_filtered_feature_bc_matrix.h5',
'Exp998_2_Normal_TIS05396-001-009_sample_filtered_feature_bc_matrix.h5',
'Exp998_6_early_myoproliferative_TIS05395-001-009_sample_filtered_feature_bc_matrix.h5',
'Exp998_7_MM_TIS05395-001-009_sample_filtered_feature_bc_matrix.h5',
'Exp998_8_chronic_myleogenous_leukemia_TIS05398-001-008_sample_filtered_feature_bc_matrix.h5',
'EXP00904_w1_Visium_NewBlock_TIS05740-001-018_sample_filtered_feature_bc_matrix.h5',
'EXP00904_w3_Visium_OldBlock_TIS06612-001-001_sample_filtered_feature_bc_matrix.h5',
'EXP00904_w4_CD_AR_OldBlock_TIS06612-001-001_sample_filtered_feature_bc_matrix.h5',
'EXP00942_New_CD_AR_TIS06615-001-002_sample_filtered_feature_bc_matrix.h5',
'EXP00942_Old_CD_AR_TIS06610-001-001_sample_filtered_feature_bc_matrix.h5',
'EXP00980_CST_Stain2_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
'EXP00980_Dub_Stain2_TIS05841-001-008_sample_filtered_feature_bc_matrix.h5',
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files_list = ['EXP00998_1_MM_TIS05392-001-008_sample_filtered_feature_bc_matrix.h5',
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'EXP00998_9_MM_TIS04789-001-015_sample_filtered_feature_bc_matrix.h5',
'EXP01109_Multiplex1_1_TIS06392_1.csv',
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'EXP01109_Multiplex1_4_TIS05683_3_sample_filtered_feature_bc_matrix.h5',
'EXP01109_Multiplex1_5_TIS05684_1.csv',
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'EXP01109_Multiplex2_5_TIS05684_1_sample_filtered_feature_bc_matrix.h5',
'EXP01109_Multiplex2_5_TIS05684_2.csv',
'EXP01109_Multiplex2_5_TIS05684_2_sample_filtered_feature_bc_matrix.h5',
'EXP01109_Multiplex2_5_TIS05684_3.csv',
'EXP01109_Multiplex2_5_TIS05684_3_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS05681-001-004_c1_.csv',
'EXP01109_TIS05681-001-004_c1_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS05681-001-004_c2_.csv',
'EXP01109_TIS05681-001-004_c2_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS05683-001-004_c1_.csv',
'EXP01109_TIS05683-001-004_c1_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS05683-001-004_c2_.csv',
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'EXP01109_TIS05684-001-004_c2_.csv',
'EXP01109_TIS05684-001-004_c2_sample_filtered_feature_bc_matrix.h5',
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'EXP01109_TIS06381-002-005_c1_.csv',
'EXP01109_TIS06381-002-005_c1_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS06381-002-005_c2_.csv',
'EXP01109_TIS06381-002-005_c2_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS06392-002-005_c1_.csv',
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'EXP01109_TIS06392-002-005_c2_.csv',
'EXP01109_TIS06392-002-005_c2_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS06402-001-005_c1_.csv',
'EXP01109_TIS06402-001-005_c1_sample_filtered_feature_bc_matrix.h5',
'EXP01109_TIS06402-001-005_c2_.csv',
'EXP01109_TIS06402-001-005_c2_sample_filtered_feature_bc_matrix.h5',
'EXP01387_1_TIS09204-001-001_celltypist.csv',
'EXP01387_1_TIS09204-001-001_sample_filtered_feature_bc_matrix.h5',
'EXP01387_1_TIS09204-001-001_scrublet.csv',
'EXP01387_2_TIS09205-001-001_celltypist.csv',
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'EXP01387_4_TIS09207-001-001_scrublet.csv',
'EXP01387_5_TIS09208-001-001_celltypist.csv',
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'EXP01387_5_TIS09208-001-001_scrublet.csv',
'EXP01387_6_TIS09209-001-001_celltypist.csv',
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'EXP01387_6_TIS09209-001-001_scrublet.csv',
'EXP01387_7_TIS09210-001-001_celltypist.csv',
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'EXP01387_8_TIS09211-001-001_celltypist.csv',
'EXP01387_8_TIS09211-001-001_sample_filtered_feature_bc_matrix.h5',
'EXP01387_8_TIS09211-001-001_scrublet.csv']

'Exp01349_TissDiss_SP1_TIS06385-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP2_TIS06389-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP3_TIS06665-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP4_TIS06664-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP5_TIS06394-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP6_TIS06390-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP7_TIS06384-001_sample_filtered_feature_bc_matrix.h5',
'Exp01349_TissDiss_SP8_TIS06397-001_sample_filtered_feature_bc_matrix.h5',
'Exp998_10_MM_Plasmacytoma_TIS06392-001-003_sample_filtered_feature_bc_matrix.h5',
'Exp998_6_early_myoproliferative_TIS05395-001-009_sample_filtered_feature_bc_matrix.h5',
'Exp998_7_MM_TIS05395-001-009_sample_filtered_feature_bc_matrix.h5',
'Exp998_8_chronic_myleogenous_leukemia_TIS05398-001-008_sample_filtered_feature_bc_matrix.h5']

import hisepy as hp
from concurrent.futures import ThreadPoolExecutor, as_completed
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