II.2 Agrogenom intermediary result files: detection of potential paralogous lineages

File set as generated by find_ancestral_duplications.py program:modified_trees/:<br>Gene trees are modified where branch supports were low and SPR moves allowed to decrease the amount of duplication and loss events; saved as Newick trees.normed_trees/:the same trees saved in custom phyloXML format including the reconciliation information.<br>treeshelves/:<br>the same annotated tree as serialized Python objects.subfams/:lists of (posibly overlapping) unicopy leaf sets extracted from gene families<br>subtrees/:unicopy_subtrees extracted from the (modified) gene trees, the leaf labels only bear the species label; saved as Newick trees.subtree2leaves/:dictionary of subfamily leaf sets to the corresponding subtree files.