Illumina Sequencing Artifact Metadata and k-mer Frequencies

Additional file 1 contains four tables from a study on a recurrent sequencing artifact in Illumina two-color dye chemistry. The tables include metadata for 14 paired NovaSeq and HiSeq samples, processing filters, high-depth sample metadata, and k-mer frequencies around single-base substitutions. The dataset, authored by Beverly J. Fu, is available under a CC-BY-4.0 license.

Use Cases

• Benchmarking variant calling pipelines based on paired NovaSeq and HiSeq sample metadata.
• Applying artifact-specific filters during sequence processing based on the documented TNFilter criteria.
• Analyzing sequence context bias around substitutions based on reported k-mer frequencies.

Strengths

• Includes metadata for 14 paired samples sequenced on two different Illumina platforms.
• Provides specific filter criteria used in the TNFilter processing pipeline.
• Contains k-mer frequency data derived from both HiSeq X10 and NovaSeq 6000 sequencers.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• The dataset is small (202.2 KB), indicating limited scope.

Provenance

Source

Beverly J. Fu

Collection Method

Derived from sequencing experiments on Illumina NovaSeq and HiSeq platforms.

Freshness

Last updated 2026-05-28 04:34:21; freshness should be verified.