diff --git a/UserManual.pdf b/UserManual.pdf
index c6fae91bbbb24ae7bc4b0f5f76a2e6882fdf5ed8..0e894b2852272191a6317dfb71123fa792cea49d 100644
Binary files a/UserManual.pdf and b/UserManual.pdf differ
diff --git a/dogma.py b/dogma.py
index 6c8807c54df79dd98c3f54736e72b76c4c49cde9..8368a1efa72b1015a89eb6fca9818680cfedc658 100755
--- a/dogma.py
+++ b/dogma.py
@@ -284,7 +284,7 @@ def score_single_transcriptome(annotation_file, outfile=None, max_dom_tup_len=3,
     script_path = dirname(realpath(sys.argv[0]))
     at = annotype
 
-    if hq_transcriptomes in ('eukaryotes', 'mammals', 'insects', 'bacteria', 'archaea', 'arthropods', 'dicots', 'fungi', 'monocots', 'plants', 'vertebrates'):
+    if hq_transcriptomes in ('eukaryotes', 'mammals', 'insects', 'bacteria', 'archaea', 'arthropods', 'eudicots', 'fungi', 'monocots', 'plants', 'vertebrates'):
         hq_doms_path_list = [ospjoin(script_path, 'pfam' + pfam, 'reference-sets', hq_transcriptomes, filename) for
                              filename in
                              listdir(ospjoin(script_path, 'pfam' + pfam, 'reference-sets', hq_transcriptomes)) if
@@ -363,7 +363,7 @@ def score_single_proteome(annotation_file, outfile=None, cutoff=2,
     script_path = dirname(realpath(sys.argv[0]))
     at = annotype
 
-    if hq_proteomes in ('eukaryotes', 'mammals', 'insects', 'bacteria', 'archaea', 'arthropods', 'dicots', 'fungi', 'monocots', 'plants', 'vertebrates'):
+    if hq_proteomes in ('eukaryotes', 'mammals', 'insects', 'bacteria', 'archaea', 'arthropods', 'eudicots', 'fungi', 'monocots', 'plants', 'vertebrates'):
         hq_doms_path_list = [ospjoin(script_path, 'pfam' + pfam, 'reference-sets', hq_proteomes, filename) for
                              filename in listdir(ospjoin(script_path, 'pfam' + pfam, 'reference-sets', hq_proteomes)) if
                              (isfile(ospjoin(script_path, 'pfam' + pfam, 'reference-sets', hq_proteomes, filename)) and
@@ -618,7 +618,7 @@ class SpeciesComparer(dict):
         self.default_path = (ospjoin(self.script_path, 'reference-sets', 'archaea'),
                              ospjoin(self.script_path, 'reference-sets', 'arthropods'),
                              ospjoin(self.script_path, 'reference-sets', 'bacteria'),
-                             ospjoin(self.script_path, 'reference-sets', 'dicots'),
+                             ospjoin(self.script_path, 'reference-sets', 'eudicots'),
                              ospjoin(self.script_path, 'reference-sets', 'eukaryotes'),
                              ospjoin(self.script_path, 'reference-sets', 'fungi'),
                              ospjoin(self.script_path, 'reference-sets', 'insects'),