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| author | Alexander_Kabui | 2022-07-21 23:26:52 +0300 |
|---|---|---|
| committer | BonfaceKilz | 2022-07-22 14:52:08 +0300 |
| commit | d4d1a39c4aa302ee2a074da6fdf76a6fab91c267 (patch) | |
| tree | f47a95e184e6871a07925b8d9111bcdb28fb237a | |
| parent | 5ad7a862dfa4d53fac9ddf7fd86075faa5167df5 (diff) | |
| download | genenetwork3-d4d1a39c4aa302ee2a074da6fdf76a6fab91c267.tar.gz | |
compute num overlap
| -rw-r--r-- | gn3/computations/rust_correlation.py | 9 |
1 files changed, 6 insertions, 3 deletions
diff --git a/gn3/computations/rust_correlation.py b/gn3/computations/rust_correlation.py index 4438d79..086db3b 100644 --- a/gn3/computations/rust_correlation.py +++ b/gn3/computations/rust_correlation.py @@ -89,10 +89,9 @@ def parse_correlation_output(result_file: str, top_n: int = 500) -> list[dict]: lines = [next(file_reader) for x in range(top_n)] for line in lines: - - (trait_name, corr_coeff, p_val) = line.rstrip().split(",") + (trait_name, corr_coeff, p_val, num_overlap) = line.rstrip().split(",") corr_data = { - "num_overlap": 00, # to be later fixed + "num_overlap": num_overlap, "corr_coefficient": corr_coeff, "p_value": p_val } @@ -169,3 +168,7 @@ def parse_tissue_corr_data(symbol_name: str, pass return (x_vals, data) + + +def parse_lit_corr_data(trait, dataset): + pass |