initial commit for adding combat functionality

YeoLab · May 8, 2015 · 2653d69 · 2653d69
1 parent 99b00c6
commit 2653d69
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/flotilla/data_model/study.py b/flotilla/data_model/study.py
@@ -80,6 +80,7 @@ def __init__(self, sample_metadata, version='0.1.0', expression_data=None,
                  expression_log_base=None,
                  expression_thresh=-np.inf,
                  expression_plus_one=False,
+                 expression_correct_batch_effects=False,
                  splicing_data=None,
                  splicing_feature_data=None,
                  splicing_feature_rename_col=None,
@@ -100,6 +101,8 @@ def __init__(self, sample_metadata, version='0.1.0', expression_data=None,
                  metadata_phenotype_to_color=None,
                  metadata_phenotype_to_marker=None,
                  metadata_outlier_col=OUTLIER_COL,
+                 metadata_batch_col='batch',
+                 metadata_batch_min_samples=3,
                  license=None, title=None, sources=None,
                  default_sample_subset="all_samples",
                  default_feature_subset="variant",