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BLOBFISH Implementation #321

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Jun 28, 2024
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3 changes: 2 additions & 1 deletion DESCRIPTION
Original file line number Diff line number Diff line change
Expand Up @@ -50,6 +50,7 @@ Imports:
GO.db,
org.Hs.eg.db,
Matrix,
matrixTests,
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@marouenbg marouenbg Jun 17, 2024

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@taraeicher Tara, what is the library for?

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This is for parallelizing the statistical test for each edge in the network. Doing them one-by-one makes the process very slow, so I used matrixTests to do them all at once.

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Great!

gplots,
nnet,
data.table,
Expand Down Expand Up @@ -95,6 +96,6 @@ Suggests:
dorothea
VignetteEngine: knitr
VignetteBuilder: knitr
RoxygenNote: 7.2.3
RoxygenNote: 7.3.1
BugReports: https://github.com/netZoo/netZooR/issues
URL: https://github.com/netZoo/netZooR, https://netzoo.github.io/
4 changes: 4 additions & 0 deletions NAMESPACE
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@@ -1,5 +1,9 @@
# Generated by roxygen2: do not edit by hand

export(CalculatePValues)
export(GenerateNullPANDADistribution)
export(PlotNetwork)
export(RunBLOBFISH)
export(adj2el)
export(adj2regulon)
export(alpaca)
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645 changes: 645 additions & 0 deletions R/BLOBFISH.R

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54 changes: 54 additions & 0 deletions man/BuildSubnetwork.Rd

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40 changes: 40 additions & 0 deletions man/CalculatePValues.Rd

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24 changes: 24 additions & 0 deletions man/FindConnectionsForAllHopCounts.Rd

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35 changes: 35 additions & 0 deletions man/FindSignificantEdgesForHop.Rd

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40 changes: 40 additions & 0 deletions man/GenerateNullPANDADistribution.Rd

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53 changes: 53 additions & 0 deletions man/PlotNetwork.Rd

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58 changes: 58 additions & 0 deletions man/RunBLOBFISH.Rd

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41 changes: 41 additions & 0 deletions man/SignificantBreadthFirstSearch.Rd

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