a5c-ai/babysitter - Page 21

deepvariant-caller

DeepVariant deep learning variant calling skill for high-accuracy SNV and indel detection

deseq2-differential-expression

DESeq2 differential expression analysis skill with normalization, statistical modeling, and visualization

fastqc-quality-analyzer

Sequencing quality control skill for assessing read quality, adapter contamination, and sequence composition

fusion-gene-detector

Gene fusion detection skill for oncology applications with multiple caller integration

ga4gh-standards-validator

GA4GH standards compliance skill for data sharing and interoperability

gatk-variant-caller

GATK best practices skill for germline and somatic variant calling with joint genotyping

giab-benchmark-validator

Genome in a Bottle benchmark validation skill for pipeline accuracy assessment

gsea-pathway-analyzer

Gene Set Enrichment Analysis skill for functional annotation and pathway interpretation

hipaa-compliance-validator

HIPAA compliance validation skill for genomic data handling and audit

hpo-phenotype-matcher

Human Phenotype Ontology skill for phenotype-driven gene prioritization

humann-functional-profiler

HUMAnN functional profiling skill for metagenomic pathway analysis

igv-genome-browser

IGV integration skill for interactive genome visualization and review

kraken2-taxonomic-classifier

Kraken2 taxonomic classification skill for rapid metagenomic read assignment

mageck-crispr-analyzer

MAGeCK CRISPR screen analysis skill for gene essentiality scoring

maxquant-processor

MaxQuant mass spectrometry skill for protein identification and quantification

megahit-assembler

MEGAHIT metagenomic assembly skill for reconstructing genomes from short reads

metaphlan-profiler

MetaPhlAn metagenomic profiling skill for species-level community composition

nextflow-pipeline-executor

Nextflow workflow management skill for reproducible bioinformatics pipelines

perseus-statistical-analyzer

Perseus statistical analysis skill for proteomics data analysis and visualization

pharmgkb-annotator

PharmGKB pharmacogenomics annotation skill for drug-gene interaction assessment

phylogenetics-tree-builder

Phylogenetic analysis skill for constructing evolutionary trees and assessing relationships

pymol-visualizer

PyMOL molecular visualization skill for structure rendering and analysis

qiime2-microbiome-analyzer

QIIME2 microbiome analysis skill for 16S rRNA profiling and diversity analysis

rdkit-chemoinformatics

RDKit chemoinformatics skill for molecular property calculation and compound library management

salmon-quantifier

Salmon pseudo-alignment skill for fast and accurate transcript quantification

samtools-bam-processor

BAM/SAM file manipulation skill for sorting, indexing, filtering, and extracting alignment data

seurat-single-cell-analyzer

Seurat single-cell analysis skill for clustering, annotation, and trajectory analysis

singularity-container-manager

Singularity container management skill for HPC-compatible containerized execution

snakemake-workflow-manager

Snakemake workflow management skill for rule-based pipeline execution

star-rnaseq-aligner

STAR alignment skill for splice-aware RNA-seq read mapping with comprehensive QC metrics

string-network-analyzer

STRING protein interaction network skill for functional enrichment and network visualization

structural-variant-detector

Structural variant detection skill for identifying CNVs, inversions, translocations, and complex rearrangements

tmb-msi-calculator

Tumor mutation burden and microsatellite instability calculation skill for immunotherapy biomarkers

ucsc-genome-browser-querier

UCSC Genome Browser query skill for genome annotation retrieval and track data access

vep-variant-annotator

Variant Effect Predictor skill for comprehensive variant annotation with clinical database integration

adverse-event-reporter

Adverse event monitoring and reporting skill for MDR/MEDWATCH compliance

aiml-validation-framework

AI/ML medical device validation skill implementing FDA's GMLP principles

biocompatibility-test-selector

Biocompatibility test selection and protocol recommendation skill based on device categorization

bioreactor-protocol-generator

Bioreactor culture protocol development skill for tissue construct maturation

clinical-literature-reviewer

Systematic literature review skill for clinical evaluation supporting regulatory submissions