A CWL version of the Seqware OxoG workflow. This repository also contains scripts and dockerfiles used by the stand-alone versions of these components.
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Nov 30, 2018 - Shell
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pcawg
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This workflow performs annotation on SNV and INDEL VCFs.
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Feb 5, 2018 - JavaScript
Code used to plot mutational signature profiles in https://doi.org/10.1101/322859. Please use the supported R package ICAMS instead.
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Jan 8, 2021 - R
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Dec 28, 2018 - JavaScript
Analyzing Copy Number Variation (CNV) Events within the PCAWG dataset via GenomeTornadoPlot
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Apr 13, 2025 - Python
tumorProfiler is a modular analytical and predictive framework for tumor classification and biomarker discovery. It integrates multiple transcriptomic features — promoter activity, alternative splicing and gene expression— to model both inter-organ tumor types and intra-tissue progression subtypes.
cancer machine-learning-algorithms promoter-activity alternative-splicing-analysis pcawg tumor-classification tumor-types
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Sep 4, 2025 - R
The CWL workflow to execute the OxoG filter.
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Feb 5, 2018 - Python
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