Corbi-package {Corbi} | R Documentation |
This pakcage provides a bundle of basic and fundamental bioinformatics tools.
These bioinformatics tools are developed by WuLab at Academy of Mathematics and Systems Science, Chinese Academy of Sciences.
Network querying and alignment:
net_query
Network querying method based on conditional random fields
net_query_batch
Batch processing version of net_query
net_align
Network alignment method based on conditional random fields
Subnetwork extraction and search:
get_subnets
Enumerate all subnetworks of limited size
extend_subnets
Extend subnetworks from smaller subnetworks
best_subnets
Search best subnetworks that maximize given objective function
Biomarker identification:
markrank
Biomarker identification and prioritization by integrating gene expression with biomolecular network
Qiang Huang, Ling-Yun Wu, and Xiang-Sun Zhang. An Efficient Network Querying Method Based on Conditional Random Fields. Bioinformatics, 27(22):3173-3178, 2011.
Qiang Huang, Ling-Yun Wu, and Xiang-Sun Zhang. Corbi: A new R package for biological network alignment and querying. BMC Systems Biology, 7(Suppl 2):S6, 2013.