Unix, R and python tools for genomics and data science
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Aug 25, 2025 - Shell
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cancer-genomics
Here are 7 public repositories matching this topic...
A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
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Aug 30, 2019 - Shell
Set of commandline tools for analysis of tumor variants without a matching normal. Method described in Genome Research: http://genome.cshlp.org/content/25/9/1382.full
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May 10, 2022 - Shell
Docker container to download dbNSFP 'database' and wrangle it into a format suitable for pipeline annotation process
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Aug 28, 2019 - Shell
Comprehensive somatic mutation analysis of paired tumor-control samples using high-throughput sequencing data. This project integrates variant calling, functional annotation, and structural alteration analysis to uncover clinically relevant genomic changes, estimate tumor purity and ploidy, and explore potential therapeutic targets in oncogenomics.
shell bioinformatics r cancer somatic-variants gatk cancer-genomics igv copy-number-variation hg19 tumor-segmentation tumor-purity-estimation tpes variant-calling-and-annotation tumor-ploidy-estimation clonetv2 computational-human-genomics
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Jul 24, 2025 - Shell
Pipeline to filter whole exome vcf files and generate a report document for clinical diagnostics.
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Dec 4, 2019 - Shell
Downloading and processing pipelines used for single cell gene expression assays of human tumor biopsies
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Jan 25, 2018 - Shell
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