tcameronwaller/dymetabonet

Issues

• filter network's elements by topological traversal (proximity, path)

  #51 opened 7 years ago by tcameronwaller
  0

• implement a color scheme with a light background

  #68 opened 7 years ago by tcameronwaller
  0

• optimize efficiency of entire application

  #84 opened 7 years ago by tcameronwaller
  1

• consider how to give access to complete information about reactions and metabolites

  #85 opened 7 years ago by tcameronwaller
  1

• scale metabolites' nodes by count of reactions (degree) and reactions' nodes by count of processes

  #86 opened 7 years ago by tcameronwaller
  0

• create table to summarize metabolites, their degrees, and replication status

  #40 opened 7 years ago by tcameronwaller
  2

• improve efficiency of procedure to define network's elements

  #61 opened 7 years ago by tcameronwaller
  1

• indicate compartments in names of compartmental metabolites

  #67 opened 7 years ago by tcameronwaller
  1

• implement procedure for definition of network's elements from new information structure

  #81 opened 7 years ago by tcameronwaller
  0

• organize all controls within collapsible side panel

  #70 opened 7 years ago by tcameronwaller
  1

• transfer sets' summary menu to side panel

  #71 opened 7 years ago by tcameronwaller
  0

• organize views

  #76 opened 7 years ago by tcameronwaller
  1

• optimize procedures for data transformation

  #73 opened 7 years ago by tcameronwaller
  1

• organize procedures and actions to check and clean raw information and extract information about metabolic entities and sets

  #87 opened 7 years ago by tcameronwaller
  0

• indicate sets that pass filters even when filter selection is false

  #69 opened 7 years ago by tcameronwaller
  1

• manage data structures efficiently

  #72 opened 7 years ago by tcameronwaller
  0

• establish hierarchies in filters and selections of entities

  #66 opened 7 years ago by tcameronwaller
  3

• implement and organize information about candidate entities

  #77 opened 7 years ago by tcameronwaller
  0

• repair procedures to support application's actions with novel structures of information

  #79 opened 7 years ago by tcameronwaller
  0

• aggregate network's elements visually by sets

  #74 opened 7 years ago by tcameronwaller
  1

• organize and standardize code's nomenclature, documentation, and format

  #60 opened 7 years ago by tcameronwaller
  1

• increase efficiency of procedures for filtration by sets

  #83 opened 7 years ago by tcameronwaller
  2

• implement filtration constraints

  #82 opened 7 years ago by tcameronwaller
  6

• adapt procedures of attribution and filtration to novel structures of information

  #80 opened 7 years ago by tcameronwaller
  0

• remove portions of code from previous procedures that are obsolete

  #78 opened 7 years ago by tcameronwaller
  0

• support zoom and pan interactions with network's diagram

  #59 opened 7 years ago by tcameronwaller
  1

• support import and representation of custom data on network

  #75 opened 7 years ago by tcameronwaller
  0

• store information about selections within sets' summary

  #62 opened 7 years ago by tcameronwaller
  1

• avoid replication of network's elements with interaction

  #63 opened 7 years ago by tcameronwaller
  2

• draw network only when selections of entities change

  #64 opened 7 years ago by tcameronwaller
  2

• improve accessibility of titles for network's elements

  #65 opened 7 years ago by tcameronwaller
  0

• improve efficiency of process of filtering entities by values of attributes

  #52 opened 7 years ago by tcameronwaller
  1

• accommodate variable scales of networks in network view

  #46 opened 7 years ago by tcameronwaller
  3

• adjust default scale of elements in network's diagram relative to counts of elements

  #58 opened 7 years ago by tcameronwaller
  2

• optimize simulation's forces for layout of node-link diagram

  #57 opened 7 years ago by tcameronwaller
  0

• represent reactions visually in node-link diagram

  #48 opened 7 years ago by tcameronwaller
  3

• determine orientations of reactions' nodes from positions of nodes for their metabolites as reactants and products

  #54 opened 7 years ago by tcameronwaller
  1

• define network's elements

  #55 opened 7 years ago by tcameronwaller
  1

• avoid occlusion of central nodes for reactions

  #53 opened 7 years ago by tcameronwaller
  1

• give reactions' nodes references to all of their metabolites' nodes

  #56 opened 7 years ago by tcameronwaller
  2

• improve efficiency of network assembly

  #49 opened 7 years ago by tcameronwaller
  2

• simplify representation of compartmental replicate reactions in non-compartmental network

  #39 opened 7 years ago by tcameronwaller
  9

• include information about replication in records for reactions

  #50 opened 7 years ago by tcameronwaller
  1

• omit from network (not sets cardinalities) reactions with only reactants or only products

  #47 opened 7 years ago by tcameronwaller
  2

• distinguish visually between nodes for reactions and nodes for metabolites

  #42 opened 7 years ago by tcameronwaller
  1

• specify entity type, metabolite or reaction, in records for metabolic entities

  #43 opened 7 years ago by tcameronwaller
  1

• support option to simplify metabolites' representation in network by either replication or omission of nodes

  #41 opened 7 years ago by tcameronwaller
  0

• specify selection for simplification in records for metabolites

  #44 opened 7 years ago by tcameronwaller
  3

• omit from network representations of reactions with only metabolites for simplification

  #45 opened 7 years ago by tcameronwaller
  0

• evaluate potential replicate reactions with identical reactants and products

  #38 opened 7 years ago by tcameronwaller
  4