Execute germline and somatic variant calling with GATK, PLINK2, and VEP.
npx skills add https://github.com/inflexa-ai/inflexa --skill genomic-variants
Please help me install this Agent Skill. Skill: genomic-variants Source: https://github.com/inflexa-ai/inflexa/tree/main/skills/genomic-variants Command: npx skills add https://github.com/inflexa-ai/inflexa --skill genomic-variants
This skill provides a standardized, reproducible framework for processing genomic data, ensuring that complex variant calling and association studies are performed with rigorous quality control and auditability.
Use the genomic-variants skill to perform variant calling on the provided tumor and normal BAM files using the Mutect2 workflow.
High-intent search queries and answers about installing and using this skill.
Somatic variant calling on matched tumor and normal BAM files is executed using the Mutect2 workflow, orchestrating detection to identify tumor-specific genomic variants accurately.
Genome-wide association studies are supported with PCA-based population structure adjustment and relatedness filtering, ensuring population-scale association testing remains statistically rigorous.
Yes, whole genome and whole exome sequencing pipelines integrate standard genomic toolsets like GATK and PLINK2 to ensure reproducible and auditable bioinformatics results.
VEP annotation integrates custom filtering logic to prioritize genomic variants based on clinical significance and population frequency, streamlining the identification of relevant mutations.
Structural variant detection is fully supported alongside germline and somatic calling, providing comprehensive genomic variant analysis for complex bioinformatics pipelines.
DeepVariant and Manta orchestrate germline and somatic variant detection within cohort-based genotype data processing, ensuring rigorous quality control and reproducible scientific results.
jaechang-hitsAlign short DNA sequencing reads to a reference genome using BWA-MEM2.
gracefullightGenerate statistical visualizations with seaborn in Python.
MubasherMohammedAggregate bioinformatics QC reports into MultiQC HTML and ClawBio markdown summaries.
openscientist-ioIdentify differential gene expression patterns from RNA-seq and transcriptomics data.
