| | 1 | 1. '''Base on network:''' Network -> pathway |
| | 2 | 1. '''Extend existing pathway''' Pathway -> network -> network + new network data -> pathway |
| | 3 | |
| | 4 | == Base on network == |
| | 5 | * '''Load network''' |
| | 6 | * '''From table''' |
| | 7 | * '''From file''' |
| | 8 | * '''Query network database''' |
| | 9 | * '''cPath''' |
| | 10 | * '''InAct''' |
| | 11 | * '''DIP''' |
| | 12 | * '''PathwayCommons''' |
| | 13 | * '''MiM plugin''' |
| | 14 | * '''Generate network''' |
| | 15 | * '''Agilent Literature Search''' |
| | 16 | * '''MetaNetter''' |
| | 17 | * '''MONET''' |
| | 18 | * '''Annotate''' |
| | 19 | * '''Load GO annotations''' |
| | 20 | * '''Load node/edge attributes''' |
| | 21 | * '''Layout''' |
| | 22 | * '''BubbleRouter''' |
| | 23 | * '''Cerebral''' |
| | 24 | * '''Export to pathway''' |
| | 25 | * '''Save as GPML''' |
| | 26 | * '''Create pathway on WikiPathways:''' will create a new pathway on WikiPathways based on this network |
| | 27 | * '''Copy to clipboard:''' Copy the selected part of the network to the clipboard, to paste it in PathVisio or WikiPathways |
| | 28 | |
| | 29 | |
| | 30 | == Extend existing pathway == |
| | 31 | * '''Import pathway''' |
| | 32 | * '''From file:''' Imports a GPML file |
| | 33 | * '''From clipboard:''' Paste GPML data (copied from PathVisio or WikiPathways) |
| | 34 | * '''From WikiPathways:''' Specify a pathway title, and it will be downloaded from WikiPathways |
| | 35 | *'''Extend network''' |
| | 36 | * '''Agilent Literature Search''' |
| | 37 | * '''cPath/InAct''': This should not create a new network based on cPath/InAct data, but ''merge'' it into the existing network. Is this possible? |
| | 38 | * '''Layout''' |
| | 39 | * '''BubbleRouter''' |
| | 40 | * '''Cerebral''' |
| | 41 | * '''Export to pathway''' |
| | 42 | * '''Save as GPML''' |
| | 43 | * '''Create pathway on WikiPathways:''' will create a new pathway on WikiPathways based on this network |
| | 44 | * '''Copy to clipboard:''' Copy the selected part of the network to the clipboard, to paste it in PathVisio or WikiPathways |
| | 45 | * |
