Python somatic-variants

Open-source Python projects categorized as somatic-variants
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Topics: cancer-genomics Bioinformatics mutation-analysis structural-variants hpc-applications
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Python somatic-variant Projects

  • SigProfilerExtractor

    SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.

    • Project mention: Any good tutorials/guides for cancer mutation analysis? | /r/bioinformatics | 2023-05-25

    Ludmil Alexandrov's tools may be a better modern choice for real data though: https://github.com/AlexandrovLab/SigProfilerExtractor

  • sv-callers

    Snakemake-based workflow for detecting structural variants in genomic data

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NOTE: The open source projects on this list are ordered by number of github stars. The number of mentions indicates repo mentiontions in the last 12 Months or since we started tracking (Dec 2020).

Index

Project Stars
1 SigProfilerExtractor 146
2 sv-callers 71

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