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RAISS
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Statistical-Genetics
RAISS
Commits
b57b5b60
Commit
b57b5b60
authored
Apr 12, 2019
by
Chunzi YAO
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Update pipes.py
parent
07ac3311
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raiss/pipes.py
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raiss/pipes.py
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b57b5b60
...
...
@@ -29,7 +29,7 @@ def save_chromosome_imputation(gwas, chrom, window_size, buffer_size, l2_regular
# Reading of inputs
z_file
=
"{0}/z_{1}_{2}.txt"
.
format
(
zscore_folder
,
gwas
,
chrom
)
zscore
=
pd
.
read_csv
(
z_file
,
index_col
=
0
,
sep
=
"
\t
"
)
ref_panel_file
=
ref_folder
+
"/"
+
chrom
+
".
eur.1pct
.bim"
ref_panel_file
=
ref_folder
+
"/"
+
chrom
+
".
FIN
.bim"
ref_panel
=
pd
.
read_csv
(
ref_panel_file
,
sep
=
"
\t
"
,
names
=
[
'chr'
,
"nothing"
,
'pos'
,
'Ref_all'
,
'alt_all'
],
index_col
=
1
)
# imputation
...
...
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