ClairS and Clair3-RNA
These two tools are complements within the RNA-structure-learning category, as ClairS is a general deep-learning method for somatic small variant calling from long reads, while Clair3-RNA is specifically designed as a long-read small variant caller tailored for RNA sequencing data, suggesting ClairS could be a foundational or related somatic variant caller that Clair3-RNA then adapts or extends for the nuances of RNA-seq.
About ClairS
HKU-BAL/ClairS
ClairS - a deep-learning method for long-read somatic small variant calling
This tool helps cancer researchers and clinical geneticists identify subtle genetic changes (somatic small variants) that occur in a tumor but not in healthy tissue. It takes raw DNA sequencing data from paired tumor and normal samples (specifically long-read data from Oxford Nanopore or PacBio, and also Illumina data) and outputs a list of these somatic variants, indicating what changed and where. This allows scientists to pinpoint mutations relevant to cancer development or treatment.
About Clair3-RNA
HKU-BAL/Clair3-RNA
Clair3-RNA - a long-read small variant caller for RNA sequencing data
This project helps molecular biologists and geneticists pinpoint small genetic variations (like single letter changes or small insertions/deletions) within RNA sequencing data. You provide raw or aligned long-read RNA sequencing data from platforms like Oxford Nanopore or PacBio, and it outputs a list of these genetic variants. Researchers studying gene expression, RNA editing, or disease mechanisms will find this tool useful.
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