NEWS

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causalASCEND 0.99.5

• Vignette: how the package fits into Bioconductor and how it differs from related packages.

causalASCEND 0.99.4

• Removed a stray copy of the package from a subfolder.

causalASCEND 0.99.3

• Pairs holding only an R2 (non-descendant) relation are tested again in later sweeps; R2 in both directions makes a pair unrelated (symmetry).

causalASCEND 0.99.2

• README wording.

causalASCEND 0.99.1

• SummarizedExperiment is now imported (Bioconductor dependency).
• simulateTwoTier() no longer calls set.seed(); call it before simulating.
• Labelled vignette chunks, 4-space indentation, no suppressWarnings().

causalASCEND 0.99.0

• Initial Bioconductor submission.
• ascend() for matrices, data frames and SummarizedExperiment objects; ascendMultiAssay() for MultiAssayExperiment objects.
• AscendResult class with ancestralMatrix(), ancestralEdges(), pairPValues() and ascendStats().
• simulateTwoTier(), trueAncestral() and evaluateAncestral() for simulation and benchmarking.
• Results are identical to the implementation used in the paper.