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authorAlexander Kabui2022-03-18 14:57:25 +0300
committerAlexander Kabui2022-03-18 14:57:25 +0300
commit0964e2563a96130e306edd31cd91fee4b378697d (patch)
treed7002d01fb3398f9cc22a82667f74a6e5699cdb8 /wqflask
parentb158f11588afc4c93c5daf17ed0195f392e2e2d7 (diff)
downloadgenenetwork2-0964e2563a96130e306edd31cd91fee4b378697d.tar.gz
code to fetch scree data from gn3
Diffstat (limited to 'wqflask')
-rw-r--r--wqflask/wqflask/correlation_matrix/show_corr_matrix.py11
1 files changed, 11 insertions, 0 deletions
diff --git a/wqflask/wqflask/correlation_matrix/show_corr_matrix.py b/wqflask/wqflask/correlation_matrix/show_corr_matrix.py
index 88d62045..cf37b9e9 100644
--- a/wqflask/wqflask/correlation_matrix/show_corr_matrix.py
+++ b/wqflask/wqflask/correlation_matrix/show_corr_matrix.py
@@ -37,6 +37,7 @@ from gn3.computations.pca import compute_pca
from gn3.computations.pca import process_factor_loadings_tdata
from gn3.computations.pca import generate_pca_temp_traits
from gn3.computations.pca import cache_pca_dataset
+from gn3.computations.pca import generate_scree_plot_data
class CorrelationMatrix:
@@ -169,6 +170,7 @@ class CorrelationMatrix:
pca = self.calculate_pca()
self.loadings_array = process_factor_loadings_tdata(
factor_loadings=self.loadings, traits_num=len(self.trait_list))
+
else:
self.pca_works = "False"
except:
@@ -176,6 +178,7 @@ class CorrelationMatrix:
self.js_data = dict(traits=[trait.name for trait in self.traits],
groups=groups,
+ scree_data = self.scree_data,
cols=list(range(len(self.traits))),
rows=list(range(len(self.traits))),
samples=self.all_sample_list,
@@ -187,6 +190,7 @@ class CorrelationMatrix:
self.loadings = pca["components"]
self.scores = pca["scores"]
+ self.pca_obj = pca["pca"]
this_group_name = self.trait_list[0][1].group.name
temp_dataset = create_dataset(
@@ -205,6 +209,13 @@ class CorrelationMatrix:
self.pca_trait_ids = list(pca_temp_traits.keys())
+ x_coord, y_coord = generate_scree_plot_data(
+ list(self.pca_obj.explained_variance_ratio_))
+
+ self.scree_data = {
+ "x_coord": x_coord,
+ "y_coord": y_coord
+ }
return pca