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1. UHN-PMLB/WES_PDX_PDO_PatientTissue_Snakemake_v202509 UHN-PMLB/WES_PDX_PDO_PatientTissue_Snakemake_v202509 Public

   Whole Exome Sequencing workflow using fastp, xengsort (optional), bwa-mem2, GATK4, Mutect2 and CNVkit for PDX, PDO, and patient tissue samples.

   Python

2. UHN-PMLB/RNAseq_PDX_PDO_PatientTissue_Snakemake_v202509 UHN-PMLB/RNAseq_PDX_PDO_PatientTissue_Snakemake_v202509 Public

   RNAseq workflow using fastp, xengsort(optional), star, rsem for PDX, PDO, and patient tissue RNAseq data.

   Python

3. BHKLAB-DataProcessing/Xevacurate_Snakemake_UHN_Lung BHKLAB-DataProcessing/Xevacurate_Snakemake_UHN_Lung Public

   Xevaset curation pipeline developed using UHN Lung dataset

   Jupyter Notebook

4. icgc-argo-workflows/xml_variant_ingestion icgc-argo-workflows/xml_variant_ingestion Public

   ICGC ARGO variant calling pipeline which digest xml to vcf variant format

   Python

5. PMLB_chatbot PMLB_chatbot Public

   Chatbot of Princess Margaret Living Biobank

   Python

6. pdx-annotation-app pdx-annotation-app Public

   Web application to collect expert drug sensitivity rating

   HTML