Add cpe calc to vignette and fix up BuildPathwayCrosstalkNetwork function - #19

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lgw2 merged 8 commits into

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add-cpe-calc-to-vignette

Jun 18, 2026

Commits on Jun 18, 2026

change pathway-pathway weights to cluster pathway weight instead of cluster pathway evidence to match terminology in paper
lgw2
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correct comment for PTM Cluster Weight computation and rename variable
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remove whitespace at end of file and commented out code
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update comment
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remove writing of pathway.crosstalk.network from within BuildPathwayCrosstalkNetwork, and instead show the user how to save the network in the vignette
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have buildpathwaycrosstalknetwork return the cpe matrix
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edit discussion of PTM cluster weight in vignette since we get CPE.matrix back now
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fix eval=f bug
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