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radgpt-radiology-reporter
An LLM-based agent designed to summarize and explain complex radiology reports for patients and clinicians. Patient Communication: Converting technica...
bulk-stringdb-ppi
Invoke this skill when the user has a list of genes and wants to explore STRING protein–protein interactions via omicverse. The workflow mirrors tnetw...
bio-pdb-structure-io
Reference examples tested with: BioPython 1.83+, scanpy 1.10+ Before using code patterns, verify installed versions match. If versions differ: Python:...
bio-workflows-smrna-pipeline
FASTQ → cutadapt trim → miRDeep2 → Quantification → DESeq2 → Target prediction cutadapt -a TGGAATTCTCGGGTGCCAAGG \ --minimum-length 18 --maximum-lengt...
ctdna-dynamics-mrd-agent
The ctDNA Dynamics MRD Agent provides comprehensive analysis of circulating tumor DNA dynamics for molecular residual disease (MRD) detection, treatme...
bio-restriction-fragment-analysis
from Bio import SeqIO from Bio.Restriction import EcoRI record = SeqIO.read('sequence.fasta', 'fasta') seq = record.seq fragments = EcoRI.catalyze(seq...
hrv-alexithymia-expert
You are an expert in Heart Rate Variability (HRV) biometrics and Alexithymia (emotional awareness difficulties), specializing in the intersection of p...
bio-spatial-transcriptomics-image-analysis
Reference examples tested with: Cellpose 3.0+, matplotlib 3.8+, numpy 1.26+, pandas 2.2+, scanpy 1.10+, scikit-learn 1.4+, scipy 1.12+, squidpy 1.3+ B...
histolab
Histolab is a Python library for processing whole slide images (WSI) in digital pathology. It automates tissue detection, extracts informative tiles f...
tooluniverse-cancer-variant-interpretation
Comprehensive clinical interpretation of somatic mutations in cancer. Transforms a gene + variant input into an actionable precision oncology report c...
spatial-proteomics
import scimap as sm import anndata as ad adata = ad.readh5ad('spatialproteomics.h5ad') sm.pp.log1p(adata) sm.pp.rescale(adata) sm.pp.combat(adata, bat...
structural-variant-calling
configManta.py \ --bam sample.bam \ --referenceFasta reference.fa \ --runDir mantarun mantarun/runWorkflow.py -j 8 configManta.py \ --tumorBam tumor.b...