NEWS.md

In mfansler/scutrboot: Single-Cell UTR Bootstrap Tools

scutrboot 0.2.2

NEW FEATURES

• None

SIGNIFICANT USER-VISIBLE CHANGES

• testTwoSample respects the minCellsPerGene argument.

BUG FIXES

• Previously, the minCellsPerGene argument was effectively being ignored.

scutrboot 0.2.1

NEW FEATURES

• Adjusts estimated p-value in two-sample test based on number of non-NA producing bootstraps.

SIGNIFICANT USER-VISIBLE CHANGES

• testTwoSample now returns number of valid bootstraps. Typically, these will match the user-specified nBootstraps, but when bootstraps yield samples with no expression in the tested gene, they become invalid. This occurs when a gene is expressed in too few cells. The p-values are adjusted to the number of valid bootstraps. Users may want to exclude genes with low bootstraps values. Alternatively, the minCellsPerGene argument can be increased to help avoid testing such genes.

BUG FIXES

• Removes NA bootstraps when estimating p-values for testTwoSample.
• P-value estimate includes as extreme bootstraps.

scutrboot 0.2.0

NEW FEATURES

• Convert to new two-sample test.
• Generalizes usage index. User can specify index of choice (e.g., SUI, LUI, IPA)
• Adds Wasserstein Distance statistic.

SIGNIFICANT USER-VISIBLE CHANGES

• Two-sample test is now testTwoSample.
• Usage index tests use statistic="UI" with a user-provided featureIndex.
• Default test is multi-isoform via statistic="WD" for Wasserstein Distance, also known as the Earth Mover's Distance.

BUG FIXES

• None

mfansler/scutrboot documentation built on July 1, 2023, 9:17 p.m.