clmformat(1) | USER COMMANDS | clmformat(1) |

clm_format - display cluster results in readable form

zoem -i fmt -d html zoem -i fmt -d txt

Cluster 0 sz 15 self 0.82 cov 0.43-0.26 10: 0.11 18: 0.05 12: 0.02

Cluster 0 sz 15 self 0.82 cov 0.43-0.26 | | | | | clid count proj cov covmax 10: 0.11 | | clidx1 projx1 18: 0.05 | | clidx2 projx2 clid Numeric cluster identifier (arbitrarily) assigned by MCL. count The size of cluster clid. proj Projection value for cluster clid [d]. cov Coverage measure for cluster clid [d]. maxcov Max-coverage measure for cluster clid [d]. clidx1 Index of other cluster sharing relatively many edges. projx1 Projection value for the clid/clidx1 pair of clusters [e]. clidx2 : projx2 : as clidx1 and projx1

[foo bar zut] 21 7-5 0.73 0.420-0.331 0.282-0.047 0.071-0.035 <3.54> 10 6/3 0.16 0.071-0.047 0.268-0.442 12 4/2 0.11 0.071-0.035 0.296-0.515

[label] 21 7-5 0.73 0.420-0.331 0.282-0.047 0.071-0.035 <3.54> | | | | | | | | | | | idx nbi nbo proj cov covmax max_i min_i max_o-min_o SUM 10 6/3 0.16 0.268-0.442 0.071-0.047 | | | | | | | | clusid sz nb proj cov covmax max_i min_i label Optional; with -tab <tabfile> option. idx Numeric (mcl) identifier. nbi Count of the neighbours of node idx within its cluster. nbo Count of the neighbours of node idx outside its cluster. proj Projection value [a] of nbi edges. cov Skewed projection [b], rewards inclusion of large edge weights. covmax As cov above, rewarding large edge weights even more. max_i Largest edge weight in the nbi set, normalized [c]. min_i Smallest edge weight in the nbi set [c]. max_o Largest edge weight outside the nbi set [c] min_o Smallest edge weight outside the nbi set [c]. SUM The sum of all edges leaving node idx. clusid Index of other cluster that is relevant for node idx. sz Size of that cluster. nb Count of neighbours of node idx in cluster clusid. proj Projection value of edges from node idx to cluster clusid. cov Skewed projection of edges from node idx to cluster clusid. covmax Maximally skewed projection, as above. max_o Largest edge weight for node idx to cluster clusid [c]. min_o Smallest edge weight for node idx to cluster clusid [c].

[zoo eek few] 29 18#2 2-5 0.65 0.883-0.815 0.436-0.218 0.073-0.055 /4 0.27 0.070-0.109 0.073-0.055

[label] 29 18#2 2-5 0.65 0.883-0.815 0.436-0.218 0.073-0.055 | | | | | | | | | | | | idx cl sz nbi nbo proj cov maxcov max_i min_i max_o min_o id /4 0.27 0.070-0.109 0.073-0.055 <2.29> | | | | | | | nb proj cov maxcov max_i min_i SUM label Optional; with -tab <tabfile> option. idx Numeric (mcl) identifier clid Index of the cluster that node idx belongs to sz Size of the cluster that node idx belongs to proj : cov : All these entries are the same as described above covmax : for inner nodes, pertaining to cluster clid, max_i : i.e. the native cluster for node idx min_i : (it is a member of that cluster). max_o : min_o : nb The count of neighbours of node idx in the current cluster proj Projection value for node idx relative to current cluster. cov Skewed projection (rewards large edge weights), as above. covmax Maximally skewed projection, as above. max_o Largest edge weight for node idx in current cluster [c]. min_o smallest edge weight for node idx in current cluster [c]. SUM The sum of *all* edges leaving node idx.

[a] The projection value for a node relative to some subset of its neighbours is the sum of edge weights of all edges to that subset. The sum is witten as a fraction relative to the sum of edge weights of all neighbours.

[b] cov and covmax stand for coverage and maximal coverage. The coverage measure of a node/cluster pair is a generalized and skewed projection value [a] that rewards the presence of large edge weights in the cluster, relative to the collection of weights of all edges departing from the node. The maxcov measure is a projection value skewed even further, correspondingly rewarding the inclusion of large edge weights. The cov and maxcov performance measures have several nice continuity properties and are described in [1].

[c] All edge weights are written as the fraction of the sum SUM of all edge weights of edges leaving node idx.

[d] For clusters the projection value and the coverage measures are simply the averages of all projection values [a], respectively coverage measures [b], taken over all nodes in the cluster. The cluster projection value simply measures the sum of edge weights internal to the cluster, relative to the total sum of edge weights of all edges where at least one node in the edge is part of the cluster.

[e] The projection value for start cluster x and end cluster y is the sum of edge weights of edges between x and y as a fraction of the sum of all edge weights of edges leaving x.

16 May 2014 | clmformat 14-137 |