Q (haiku): Give me an OncoPrint for RTK genes in lung cancer, limited to driver events.

▶ resolve_and_route
{
 "studyKeywords": [
  "TCGA",
  "lung"
 ]
}

◀ result
{"success":true,"message":"Found 9 matching studies (top 5 with full metadata, rest with basic info). Pick the best match (prefer TCGA → prefer PanCancer Atlas), use its metadata to call the appropriate navigation tool(s) and generate URLs immediately. Present other studies as alternatives.","data":{"totalCount":9,"studiesWithMetadata":[{"studyId":"nsclc_tcga_broad_2016","name":"Pan-Lung Cancer (TCGA, Nat Genet 2016)","sampleCount":1144,"studyViewUrl":"https://www.cbioportal.org/study?id=nsclc_tcga_broad_2016","metadata":{"clinicalAttributeIds":["AGE","AGE_AT_SURGERY","CANCER_TYPE","CANCER_TYPE_DETAILED","DAYS_TO_DEATH","DAYS_TO_LAST_FOLLOWUP","FRACTION_GENOME_ALTERED","HISTORY_NEOADJUVANT_TRTYN","HISTORY_OTHER_MALIGNANCY","MUTATION_COUNT","M_STAGE","N_STAGE","ONCOTREE_CODE","OS_MONTHS","OS_STATUS","SAMPLE_COUNT","SEX","SMOKING_HISTORY","SMOKING_PACK_YEARS","SOMATIC_STATUS","STAGE","TMB_NONSYNONYMOUS","T_STAGE"],"molecularProfileIds":["nsclc_tcga_broad_2016_cna","nsclc_tcga_broad_2016_mutations","nsclc_tcga_broad_2016_structural_variants"],"availableComparisonTabs":["overlap","clinical","survival","alterations","mutations"]}},{"studyId":"luad_tcga","name":"Lung Adenocarcinoma (TCGA, Firehose Legacy)","sampleCount":586,"studyViewUrl":"https://www.cbioportal.org/study?id=luad_tcga","metadata":{"clinicalAttributeIds":["AGE","AJCC_CLINICAL_TUMOR_STAGE","AJCC_METASTASIS_CLINICAL_CM","AJCC_METASTASIS_PATHOLOGIC_PM","AJCC_NODES_CLINICAL_CN","AJCC_NODES_CLINICAL_CT","AJCC_NODES_PATHOLOGIC_PN","AJCC_PATHOLOGIC_TUMOR_STAGE","AJCC_STAGING_EDITION","AJCC_TUMOR_PATHOLOGIC_PT","ALK_ANALYSIS_TYPE","ALK_TRANSLOCATION_STATUS","ALK_TRANSLOCATION_VARIANT","CANCER_TYPE","CANCER_TYPE_DETAILED","CARBON_MONOXIDE_DIFFUSION_DLCO","DAYS_TO_COLLECTION","DAYS_TO_INITIAL_PATHOLOGIC_DIAGNOSIS","DAYS_TO_PATIENT_PROGRESSION_FREE","DAYS_TO_SPECIMEN_COLLECTION","DAYS_TO_TUMOR_PROGRESSION","DFS_MONTHS","DFS_STATUS","DISEASE_CODE","ECOG_SCORE","ETHNICITY","EXTRANODAL_INVOLVEMENT","FEV1_FVC_RATIO_POSTBRONCHOLIATOR","FEV1_FVC_RATIO_PREBRONCHOLIATOR","FEV1_PERCENT_REF_POSTBRONCHOLIATOR","FEV1_PERCENT_REF_PREBRONCHOLIATOR","FORM_COMPLETION_DATE","FRACTION_GENOME_ALTERED","HISTOLOGICAL_DIAGNOSIS","HISTORY_IMMUNOLOGICAL_DISEASE","HISTORY_IMMUNOLOGICAL_DISEASE_OTHER","HISTORY_NEOADJUVANT_TRTYN","HISTORY_OTHER_MALIGNANCY","HISTORY_RELEVANT_INFECTIOUS_DX","HIV_STATUS","ICD_10","ICD_O_3_HISTOLOGY","ICD_O_3_SITE","INFORMED_CONSENT_VERIFIED","INITIAL_PATHOLOGIC_DX_YEAR","IS_FFPE","KARNOFSKY_PERFORMANCE_SCORE","KRAS_GENE_ANALYSIS_INDICATOR","KRAS_MUTATION","KRAS_MUTATION_IDENTIFIED_TYPE","LATERALITY","LOCATION_LUNG_PARENCHYMA","LONGEST_DIMENSION","METHOD_OF_INITIAL_SAMPLE_PROCUREMENT","METHOD_OF_INITIAL_SAMPLE_PROCUREMENT_OTHER","METHOD_OF_SAMPLE_PROCUREMENT","MUTATION_COUNT","MUTATION_STATUS","MUTATION_TYPE","NEW_TUMOR_EVENT_AFTER_INITIAL_TREATMENT","NUMBER_OF_LYMPHNODES_POSITIVE_BY_IHC","OCT_EMBEDDED","ONCOTREE_CODE","OS_MONTHS","OS_STATUS","OTHER_METHOD_OF_SAMPLE_PROCUREMENT","OTHER_PATIENT_ … (10741 more chars)

▶ navigate_to_results_view
{
 "studyIds": [
  "nsclc_tcga_broad_2016"
 ],
 "genes": [
  "EGFR",
  "KRAS",
  "MET",
  "ALK",
  "ROS1",
  "NTRK1"
 ],
 "tab": "oncoprint"
}

◀ result
{"success":true,"message":"Navigating to https://www.cbioportal.org/results/oncoprint?cancer_study_list=nsclc_tcga_broad_2016&gene_list=EGFR%0AKRAS%0AMET%0AALK%0AROS1%0ANTRK1&case_set_id=nsclc_tcga_broad_2016_all","url":"https://www.cbioportal.org/results/oncoprint?cancer_study_list=nsclc_tcga_broad_2016&gene_list=EGFR%0AKRAS%0AMET%0AALK%0AROS1%0ANTRK1&case_set_id=nsclc_tcga_broad_2016_all","data":{"studyIds":["nsclc_tcga_broad_2016"],"studies":[{"studyId":"nsclc_tcga_broad_2016","name":"Pan-Lung Cancer (TCGA, Nat Genet 2016)","sampleCount":1144}],"genes":["EGFR","KRAS","MET","ALK","ROS1","NTRK1"],"caseSetId":"nsclc_tcga_broad_2016_all","pageDescription":"Visual summary of alterations in queried genes across samples."}}

═ answer (success)
**Important note on driver filtering:**

cBioPortal's OncoPrint does not have a built-in "driver events only" filter directly in the interface. To restrict to driver-annotated mutations, you have two options:

1. **Use OQL with driver notation** (if OncoKB annotations are available in your study):
   - In the gene list, replace the gene symbols with OQL syntax like `EGFR: MUT = "driver"` (if supported by the study)
   - However, this requires that the study has OncoKB driver annotations enabled

2. **Manually filter in the interface:**
   - Once on the OncoPrint, you can hover over mutations to see their annotations and filter by selecting/deselecting specific alteration types

Here's your OncoPrint link:

**[View RTK Genes OncoPrint — Pan-Lung Cancer TCGA](https://www.cbioportal.org/results/oncoprint?cancer_study_list=nsclc_tcga_broad_2016&gene_list=EGFR%0AKRAS%0AMET%0AALK%0AROS1%0ANTRK1&case_set_id=nsclc_tcga_broad_2016_all)**

**Cohort:** Pan-Lung Cancer (TCGA, Nat Genet 2016) — 1,144 samples (adenocarcinoma + squamous cell carcinoma)

**Genes included:** EGFR, KRAS, MET, ALK, ROS1, NTRK1 (major RTK pathway drivers in lung cancer)

Once on the page, explore the Mutations tab to see detailed mutation annotations and determine which are driver-annotated events. Would you like me to query the database for specific driver mutation frequencies in these genes instead?