aboutsummaryrefslogtreecommitdiff
path: root/gn3/computations/rqtl.py
diff options
context:
space:
mode:
Diffstat (limited to 'gn3/computations/rqtl.py')
-rw-r--r--gn3/computations/rqtl.py6
1 files changed, 3 insertions, 3 deletions
diff --git a/gn3/computations/rqtl.py b/gn3/computations/rqtl.py
index 36c9fa2..b05a577 100644
--- a/gn3/computations/rqtl.py
+++ b/gn3/computations/rqtl.py
@@ -80,7 +80,7 @@ def process_rqtl_mapping(file_name: str) -> List:
return marker_obs
-def process_rqtl_pairscan(file_name: str) -> List:
+def process_rqtl_pairscan(file_name: str, geno_file: str) -> List:
"""Given an output file name, read in R/qtl pair-scan results and return
a list of both the JSON needed for the d3panels figure and a list of results
to be used when generating the results table (which will include marker names)
@@ -88,7 +88,7 @@ def process_rqtl_pairscan(file_name: str) -> List:
"""
figure_data = pairscan_for_figure(file_name)
- table_data = pairscan_for_table(file_name)
+ table_data = pairscan_for_table(file_name, geno_file)
return [figure_data, table_data]
@@ -127,7 +127,7 @@ def pairscan_for_figure(file_name: str) -> Dict:
return figure_data
-def pairscan_for_table(file_name: str) -> List:
+def pairscan_for_table(file_name: str, geno_file: str) -> List:
"""Given an output file name, read in R/qtl pair-scan results and return
a list of results to be used when generating the results table (which will include marker names)