ArticlePeerJ2026
ChoCallate: a computational pipeline for consensus germline variant calling in genomic sequencing data.
Article in PeerJ, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Authors and funding
2 authors.
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Abstract
Accurate germline variant calling in non-model and polyploid organisms remains challenging due to sequencing errors, genomic complexity, and caller-specific biases. Existing ensemble methods of variant calling are constrained by species-specific training, limited portability, or an inability to process multiple samples concurrently. To address these limitations we developed ChoCallate, a Nextflow-based pipeline for consensus germline variant calling. The pipeline integrates three species-independent callers, bcftools, FreeBayes, and Genome Analysis Toolkit (GATK) HaplotypeCaller, within a flexible voting mechanism. A distinctive feature of ChoCallate is its incorporation of coverage-aware consensus generation
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.