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Mutation Reporter: Protein-Level Identification of Single and Compound Mutations in NGS Data

Teodoro, M.; das Chagas, R. V.; Yunes, J. A.; Migita, N. A.; Meidanis, J.

2026-03-06 bioinformatics
10.1101/2024.05.30.595736 bioRxiv
Show abstract

SummaryNext-generation sequencing (NGS) has accelerated precision medicine by enabling simultaneous analysis of multiple genes and detection of low-frequency mutations. However, few open-source tools allow non-specialized users to transparently adjust quality parameters during mutation analysis. Mutation Reporter was developed to identify both single and compound amino acid alterations directly from raw fastq files of sequencing originated from RNA or exon sequences. The software provides full parameter control--including alignment e-value, minimum read length, minimum read depth, and minimum variant allele frequency (VAF). Availability and implementationMutation Reporter is available to users through a free GNU software license and can be accessed on GitHub (https://github.com/meidanis-lab/mutation-reporter) and as a Code Ocean capsule (https://codeocean.com/capsule/0121109/tree).

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"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.