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1. EnsembleVariantCallingPipeline EnsembleVariantCallingPipeline Public

   The EnsembleVariantCallingPipeline takes files in FASTQ or BAM format and performs SNV and INDEL variant calling from 4 variant callers (Mutect2, Strelka2, Varscan2, MuSE) and indel variant calling…

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2. DeepHRD DeepHRD Public

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3. DupCaller DupCaller Public

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4. HRProfiler HRProfiler Public

   Homologous Recombination Profiler (HRProfiler) is a classification tool that predicts the HRD probability for both whole-genome and exome-sequenced samples using HRD-specific mutation and copy numb…

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5. Mutographs_CRC Mutographs_CRC Public

   Scripts used for Díaz-Gay, dos Santos, Moody, et al. 2025 manuscript.

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6. DupCaller_manuscript DupCaller_manuscript Public

   Python