updates

chrov/viz/figure.py

@@ -19,6 +19,7 @@ def plot_with_chroms(
     off: float=None,
     offy: float=None,
     chrom_y: float=0,
+    show_genome: bool=False,
     arc: bool=True,
     pi_span: float=1,
     pi_start: int=0,
@@ -72,7 +73,9 @@ def plot_with_chroms(
         ax_data_external=True
     if col_start is None and xkind=='loci':
         col_start=colx
-    cytobands=cytobands.query(expr=f"`chromosome` == {data['chromosome'].drop_duplicates().tolist()}")
+
+    if not show_genome:
+        cytobands=cytobands.query(expr=f"`chromosome` == {data['chromosome'].drop_duplicates().tolist()}")
 
     # if off is None:
     #     if not arc:
@@ -170,4 +173,8 @@ def plot_with_chroms(
         **kws_annot_labels,
         test=test,
         )
-    return fig
+    # return fig
+    return {"chrom":ax_chrom,'data': ax_data,}
+
+from functools import partial
+plot_with_genome=partial(plot_with_chroms, show_genome=True,)

chrov/viz/plot.py

@@ -97,6 +97,8 @@ def plot_seaborn(
         ax.spines['right'].set_visible(False)
         ax.spines['top'].set_visible(False)
     else:
+        if pi_start==0 and pi_span==2:
+            ax.set_rlabel_position(0)            
         if pi_start==0 and pi_span>=1:
             ax.set_rlabel_position(180)
         else:

examples/chrov_viz_tests.ipynb

@@ -764,8 +764,8 @@
     }
    ],
    "source": [
-    "# from chrov.viz.chrom import plot_chroms\n",
-    "%run ../chrov/viz/chrom.py\n",
+    "from chrov.viz.chrom import plot_chroms\n",
+    "# %run ../chrov/viz/chrom.py\n",
     "ax=plot_chroms(\n",
     "    data=data.assign(start=1,arm='arm'),\n",
     "    col_end='length',\n",

setup.py

@@ -20,7 +20,7 @@
 
 requirements = {
 'base':[
-    'roux @ git+https://github.com/rraadd88/roux@master#egg=roux[viz,stat]', #TODO: roux[viz,stat]
+    "roux @ git+https://github.com/rraadd88/roux.git@master",
         ## requirements from roux 
         'scipy',
         'seaborn',