Matthew Montierth
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Categories
All (3)
benchmarking (1)
Bioconductor (1)
data.table (2)
DuckDB (2)
normalization (1)
Parquet (1)
Polars (2)
R (3)
RNA-seq (1)
TCGA (1)

Blog

Writing on benchmarking, storage formats, and data tooling for genomics-scale analysis in R.

On RNAseq normalization

R
RNA-seq
TCGA
Bioconductor
normalization

Downloading TCGA esophageal carcinoma counts, using a density heatmap to show the samples are not comparable, and then watching what CPM, upper quartile, TMM, median of ratios and quantile normalization each do to the distributions.

August 29, 2026
8 min

When not to reach for advanced libraries

R
DuckDB
Polars
data.table
benchmarking

Range joins, high-cardinality group-bys, a 46M by 36M join, and a full analysis, each timed separately for loading and computing.

August 4, 2026
11 min

Working with large data in R

R
DuckDB
Polars
data.table
Parquet

Strategies for working with large data with limited resources

August 3, 2026
10 min
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© 2026 Matthew Montierth

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