Man pages for RicUIB/AligNet
Tool to Analyze PPI Networks and Align Networks using AligNet Algorithm algorithm
| align.end | End alignment |
| align.global | Global Alignment of two Protein Interaction Network |
| align.local | Local alignment |
| align.local.all | All local alignments |
| align.local.plot | Local alignment plot plot a local alignment and all the local... |
| align.plot | Plot the alignment |
| aligns.update | Update aligns |
| alin_aux | alin_aux |
| buildBlast | No funciona |
| cluster.network | Cluster Network |
| computeIC | IC |
| compute.matrix | Compute Matrix |
| compute.matrix.Blast | No funciona |
| compute.matrix.Degree | Degree |
| compute.matrix.Distance | Distance |
| compute.matrix.DSD | DSD |
| compute.matrix.FC | FC |
| compute.score | Compute score |
| cont.type | Cont type |
| display.clusters | Display Clusters |
| dme | Protein protein interaction network of dme |
| dme-dme | Similarity matrix between proteins of dme |
| dme-sce | Similarity matrix between proteins of dme and sce |
| EC.score | Edge Correctness Score |
| EC.score.all | Edges score |
| extract.clusters | Extract clusters |
| FC.score | Functional Coherence Score |
| get.aligns | get aligns |
| go | A list of go |
| HungarianFinal | Hungarian |
| hypergraph.solve | Solve hypergraph |
| internal | A list of alignments for the vignette |
| is.element2 | is.element2 |
| matrix.update | Update Matrix |
| net1 | Protein Interaction Network |
| net2 | Protein Interaction Network |
| read.matrix | Read Matrix |
| read.matrix.col3 | Intern |
| read.matrix.RData | Intern |
| read.matrix.table | Intern |
| read.network | Read Network |
| read.network.edges | Network edges |
| read.network.tab | Network tab |
| remove.global | remove global |
| sce | Protein protein interaction network of sce |
| sce-sce | Similarity matrix between proteins of sce |
| search.aligns | Search alignments Search alignments in als from p1 to p2 |
| select.aligns | Select alignments |
| Sim | Example of similarity network |
| Sim1 | Example of similarity network |
| Sim2 | Example of similarity network |
| sim.score | simScore.aux |
| sim.score.all | Similarity Score |
| size.score.all | Size score |
| splitBIOGRID | split BIOGRID |
| splitDIP | split DIP |
| splitgene | split gene |
| splitrefseq | split refseq |
| splituniprot | split uniprot |
