add cell cycle phase counts and fractions as generic assay (#2033)

* add cell cycle generic assay meta and data * add single cell tag on generic assay type in meta files --------- Co-authored-by: Ramya Madupuri <[email protected]>
cBioPortal · Jun 12, 2024 · e9ec36d · e9ec36d
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commit e9ec36d
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Showing 6 changed files with 38 additions and 6 deletions.
diff --git a/public/msk_spectrum_tme_2022/data_cell_cycle_counts.txt b/public/msk_spectrum_tme_2022/data_cell_cycle_counts.txt
diff --git a/public/msk_spectrum_tme_2022/data_cell_cycle_fraction.txt b/public/msk_spectrum_tme_2022/data_cell_cycle_fraction.txt
diff --git a/public/msk_spectrum_tme_2022/meta_absolute_counts.txt b/public/msk_spectrum_tme_2022/meta_absolute_counts.txt
@@ -1,8 +1,8 @@
 cancer_study_identifier: msk_spectrum_tme_2022
 genetic_alteration_type: GENERIC_ASSAY
-generic_assay_type: ABSOLUTE_COUNTS
+generic_assay_type: SINGLE_CELL_ABSOLUTE_CELL_TYPE_COUNTS
 datatype: LIMIT-VALUE
-stable_id: absolute_counts
+stable_id: cell_type_absolute_counts
 profile_name: Absolute Counts
 profile_description: Absolute Counts.
 data_filename: data_absolute_counts.txt

diff --git a/public/msk_spectrum_tme_2022/meta_cell_cycle_counts.txt b/public/msk_spectrum_tme_2022/meta_cell_cycle_counts.txt
@@ -0,0 +1,13 @@
+cancer_study_identifier: msk_spectrum_tme_2022
+genetic_alteration_type: GENERIC_ASSAY
+generic_assay_type: SINGLE_CELL_ABSOLUTE_CELL_CYCLE_COUNTS
+datatype: LIMIT-VALUE
+stable_id: cell_cycle_stage_absolute_counts
+profile_name: Absolute Counts
+profile_description: Absolute Counts.
+data_filename: data_cell_cycle_counts.txt
+show_profile_in_analysis_tab: true 
+pivot_threshold_value: 0
+value_sort_order: DESC
+patient_level: false
+generic_entity_meta_properties: DESCRIPTION
diff --git a/public/msk_spectrum_tme_2022/meta_cell_cycle_fraction.txt b/public/msk_spectrum_tme_2022/meta_cell_cycle_fraction.txt
@@ -0,0 +1,13 @@
+cancer_study_identifier: msk_spectrum_tme_2022
+genetic_alteration_type: GENERIC_ASSAY
+generic_assay_type: SINGLE_CELL_RELATIVE_CELL_CYCLE_COUNTS
+datatype: LIMIT-VALUE
+stable_id: cell_cycle_stage
+profile_name: Relative Fractions
+profile_description: Relative Fractions.
+data_filename: data_cell_cycle_fraction.txt
+show_profile_in_analysis_tab: true 
+pivot_threshold_value: 0.0
+value_sort_order: DESC
+patient_level: false
+generic_entity_meta_properties: DESCRIPTION
diff --git a/public/msk_spectrum_tme_2022/meta_relative_fraction.txt b/public/msk_spectrum_tme_2022/meta_relative_fraction.txt
@@ -1,10 +1,10 @@
 cancer_study_identifier: msk_spectrum_tme_2022
 genetic_alteration_type: GENERIC_ASSAY
-generic_assay_type: RELATIVE_COUNTS
+generic_assay_type: SINGLE_CELL_RELATIVE_CELL_TYPE_COUNTS
 datatype: LIMIT-VALUE
-stable_id: relative_counts
-profile_name: Relative Counts
-profile_description: Relative Counts.
+stable_id: cell_type_relative_counts
+profile_name: Relative Fractions
+profile_description: Relative Fractions.
 data_filename: data_relative_fraction.txt
 show_profile_in_analysis_tab: true
 pivot_threshold_value: 0.000001