PANDA: Preferential Attachment Based Common Neighbor Distribution Derived Functional Associations

PANDA (Preferential Attachment based common Neighbor Distribution derived Associations) is designed to perform the following tasks in PPI networks: (1) identify significantly functionally associated protein pairs, (2) predict GO terms and KEGG pathways for proteins, (3) make a cluster of proteins based on the significant protein pairs, (4) identify subclusters whose members are enriched in KEGG pathways. For other types of biological networks, (1) and (3) can still be performed.

AuthorHua Li and Pan Tong
Date of publication2016-12-05 18:28:46
MaintainerHua Li <kaixinsjtu@hotmail.com>
LicenseArtistic-2.0
Version0.9.9

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Files in this package

PANDA
PANDA/inst
PANDA/inst/doc
PANDA/inst/doc/PANDA.R
PANDA/inst/doc/PANDA.pdf
PANDA/inst/doc/PANDA.Rnw
PANDA/NAMESPACE
PANDA/data
PANDA/data/GENE2KEGG.rda
PANDA/data/KEGGID2NAME.rda
PANDA/data/GENE2GOtopLite.rda
PANDA/data/dfPPI.rda
PANDA/R
PANDA/R/dfPPI.r
PANDA/R/GENE2KEGG.r
PANDA/R/GENE2GOtopLite.r
PANDA/R/KEGGID2NAME.r
PANDA/R/FunctionScript.R
PANDA/vignettes
PANDA/vignettes/PANDA.Rnw
PANDA/README.md
PANDA/MD5
PANDA/build
PANDA/build/vignette.rds
PANDA/DESCRIPTION
PANDA/man
PANDA/man/GOpredict-methods.Rd PANDA/man/dfPPI.Rd PANDA/man/KEGGID2NAME.Rd PANDA/man/SignificantSubcluster-methods.Rd PANDA/man/SignificantPairs-methods.Rd PANDA/man/GENE2KEGG.Rd PANDA/man/ProteinCluster-methods.Rd PANDA/man/KEGGpredict-methods.Rd PANDA/man/GENE2GOtopLite.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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