Merge branch 'master' into ccrcc_wcm_2022

cBioPortal · Sep 27, 2023 · 8fd6972 · 8fd6972
2 parents 3bdb084 + bf1997e
commit 8fd6972
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diff --git a/public/heme_msk_impact_2022/case_lists/cases_all.txt b/public/heme_msk_impact_2022/case_lists/cases_all.txt
diff --git a/public/heme_msk_impact_2022/case_lists/cases_cna.txt b/public/heme_msk_impact_2022/case_lists/cases_cna.txt
diff --git a/public/heme_msk_impact_2022/case_lists/cases_cnaseq.txt b/public/heme_msk_impact_2022/case_lists/cases_cnaseq.txt
diff --git a/public/heme_msk_impact_2022/case_lists/cases_sequenced.txt b/public/heme_msk_impact_2022/case_lists/cases_sequenced.txt
diff --git a/public/heme_msk_impact_2022/data_clinical_patient.txt b/public/heme_msk_impact_2022/data_clinical_patient.txt
diff --git a/public/heme_msk_impact_2022/data_clinical_sample.txt b/public/heme_msk_impact_2022/data_clinical_sample.txt
diff --git a/public/heme_msk_impact_2022/data_cna.txt b/public/heme_msk_impact_2022/data_cna.txt
diff --git a/public/heme_msk_impact_2022/data_cna_hg19.seg b/public/heme_msk_impact_2022/data_cna_hg19.seg
diff --git a/public/heme_msk_impact_2022/data_gene_panel_matrix.txt b/public/heme_msk_impact_2022/data_gene_panel_matrix.txt
diff --git a/public/heme_msk_impact_2022/data_mutations.txt b/public/heme_msk_impact_2022/data_mutations.txt
diff --git a/public/heme_msk_impact_2022/meta_clinical_patient.txt b/public/heme_msk_impact_2022/meta_clinical_patient.txt
@@ -0,0 +1,4 @@
+cancer_study_identifier: heme_msk_impact_2022
+genetic_alteration_type: CLINICAL
+datatype: PATIENT_ATTRIBUTES
+data_filename: data_clinical_patient.txt
diff --git a/public/heme_msk_impact_2022/meta_clinical_sample.txt b/public/heme_msk_impact_2022/meta_clinical_sample.txt
@@ -0,0 +1,4 @@
+cancer_study_identifier: heme_msk_impact_2022
+genetic_alteration_type: CLINICAL
+datatype: SAMPLE_ATTRIBUTES
+data_filename: data_clinical_sample.txt
diff --git a/public/heme_msk_impact_2022/meta_cna.txt b/public/heme_msk_impact_2022/meta_cna.txt
@@ -0,0 +1,9 @@
+cancer_study_identifier: heme_msk_impact_2022
+genetic_alteration_type: COPY_NUMBER_ALTERATION
+datatype: DISCRETE
+stable_id: cna
+show_profile_in_analysis_tab: true
+profile_name: Copy Number Alterations (FACETS)
+profile_description: Copy number alterations data generated by FACETS algorithm.
+data_filename: data_cna.txt
+
diff --git a/public/heme_msk_impact_2022/meta_cna_hg19_seg.txt b/public/heme_msk_impact_2022/meta_cna_hg19_seg.txt
@@ -0,0 +1,6 @@
+cancer_study_identifier: heme_msk_impact_2022
+reference_genome_id: hg19
+description: Somatic CNA data (copy number ratio from tumor samples minus ratio from matched normals) from MSK-IMPACT HEME panel.
+datatype:SEG
+genetic_alteration_type:COPY_NUMBER_ALTERATION
+data_filename: data_cna_hg19.seg
diff --git a/public/heme_msk_impact_2022/meta_gene_panel_matrix.txt b/public/heme_msk_impact_2022/meta_gene_panel_matrix.txt
@@ -0,0 +1,4 @@
+cancer_study_identifier: heme_msk_impact_2022
+genetic_alteration_type: GENE_PANEL_MATRIX
+datatype: GENE_PANEL_MATRIX
+data_filename: data_gene_panel_matrix.txt
diff --git a/public/heme_msk_impact_2022/meta_mutations.txt b/public/heme_msk_impact_2022/meta_mutations.txt
@@ -0,0 +1,10 @@
+cancer_study_identifier: heme_msk_impact_2022
+genetic_alteration_type: MUTATION_EXTENDED
+datatype: MAF
+stable_id: mutations
+show_profile_in_analysis_tab: true
+profile_name: Mutations
+profile_description: Targeted sequencing of 2382 myeloid and lymphoid neoplasms and their matched normals via MSK-IMPACT Heme panel.
+data_filename: data_mutations.txt
+
+
diff --git a/public/heme_msk_impact_2022/meta_study.txt b/public/heme_msk_impact_2022/meta_study.txt
@@ -0,0 +1,5 @@
+type_of_cancer: mixed
+cancer_study_identifier: heme_msk_impact_2022
+name: MSK-IMPACT Heme Tumors (MSK, 2022)
+short_name: MIXED (MSK, 2022)
+description: Targeted sequencing of 2383 myeloid and lymphoid neoplasms and their matched normals via MSK-IMPACT Heme panel.
diff --git a/...sclc_ucologne_2015/data_mrna_seq_rpkm.txt → ...sclc_ucologne_2015/data_mrna_seq_fpkm.txt b/...sclc_ucologne_2015/data_mrna_seq_rpkm.txt → ...sclc_ucologne_2015/data_mrna_seq_fpkm.txt
diff --git a/...mrna_seq_rpkm_zscores_ref_all_samples.txt → ...mrna_seq_fpkm_zscores_ref_all_samples.txt b/...mrna_seq_rpkm_zscores_ref_all_samples.txt → ...mrna_seq_fpkm_zscores_ref_all_samples.txt
diff --git a/...sclc_ucologne_2015/meta_mrna_seq_rpkm.txt → ...sclc_ucologne_2015/meta_mrna_seq_fpkm.txt b/...sclc_ucologne_2015/meta_mrna_seq_rpkm.txt → ...sclc_ucologne_2015/meta_mrna_seq_fpkm.txt
@@ -5,4 +5,4 @@ stable_id: rna_seq_mrna
 show_profile_in_analysis_tab: false
 profile_name: mRNA expression (RNA Seq)
 profile_description: Expression levels (RNA-Seq FPKM)
-data_filename: data_mrna_seq_rpkm.txt
+data_filename: data_mrna_seq_fpkm.txt
diff --git a/...mrna_seq_rpkm_zscores_ref_all_samples.txt → ...mrna_seq_fpkm_zscores_ref_all_samples.txt b/...mrna_seq_rpkm_zscores_ref_all_samples.txt → ...mrna_seq_fpkm_zscores_ref_all_samples.txt
@@ -5,4 +5,4 @@ stable_id: rna_seq_mrna_median_all_sample_Zscores
 show_profile_in_analysis_tab: true
 profile_description: Log-transformed mRNA z-scores compared to the expression distribution of all samples (RNA Seq FPKM).
 profile_name: mRNA expression z-scores relative to all samples (log RNA Seq FPKM)
-data_filename: data_mrna_seq_rpkm_zscores_ref_all_samples.txt
+data_filename: data_mrna_seq_fpkm_zscores_ref_all_samples.txt