The avatar for @ndobb
Nic Dobbins
Biomedical Software Engineer @uwrit, @uwbhi, @uw-bionlp. Creator of the Leaf clinical data explorer app. PhD from the University of Washington.
Published
Edited
Apr 23, 2021
5 stars
2
Notebook examples
Disjoint force-directed graphExplore 🤗 Hugging Face datasets with ParquetNVIDIA RTX 3000 PricesMarket Cap TreemapShark Tank: Tech Pitches ExplorationExperimental Plot BeeswarmBeeswarm for demographic dataArc chart in a boxActive peers by daytimeWindsor-Essex Emergency Rooms - An Analysis of Wait Time DataZoomable Sunburst for food imports in the US from 2010 to 2017.
Clinical Trials Annotation Data Exploration
067 Tessellated tangramsInteractive Exploration of Wine Quality and ValuationUnder The InfluenceNewspaper Contour MapsRecommender systemsPlot: LeBron James’ shotsNBA Player Shot ChartsLinde–Buzo–Gray stipplingGive Me ColorsWatercolor
Also listed in…
Biotech & Pharma
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relations.view(5);
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toksByLabel.view(5);
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tokLabelCounts.view(5);
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jsonEntities = FileAttachment("clinical_trials_annotation_entities.json").json()
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jsonRelations = FileAttachment("clinical_trials_annotation_relations@5.json").json()
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tokFreqsJs = {
const freqs = {};
for (let i = 0; i < jsonEntities.length; i++) {
const toks = jsonEntities[i].span.toLowerCase().split(" ");
for (let j = 0; j < toks.length; j++) {
const tok = toks[j];
if (tok in freqs) freqs[tok] += 1;
else freqs[tok] = 1;
}
}
return Object.entries(freqs);
}
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tokFreqs = aq.from(tokFreqsJs);
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toksByLabelPivot = tokFreqs
.join(entities.unroll('tokens'), ['0', 'tokens'])
.filter(d => op.length(d.tokens) > 3)
.groupby('tokens', 'type')
.count()
.groupby('tokens')
.pivot('type', { value: d => op.sum(d.count) });
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toksByLabel = tokFreqs
.join(entities.unroll('tokens'), ['0', 'tokens'])
.filter(d => op.length(d.tokens) > 3)
.groupby('tokens', 'type','metatype')
.count();
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