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changed ml output dirs and ready to run fs

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This commit is contained in:
Tanushree Tunstall 2022-07-01 21:40:14 +01:00
parent 57348f1874
commit 11af00f1db
5 changed files with 67 additions and 152 deletions
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8
scripts/ml/combined_model/cm_logo_skf.py
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@ -80,6 +80,8 @@ homedir = os.path.expanduser("~")
sys.path.append(homedir + '/git/LSHTM_analysis/scripts/ml/ml_functions')
sys.path
###############################################################################
outdir = homedir + '/git/LSHTM_ML/output/combined/
#====================
# Import ML functions
#====================
@ -92,6 +94,9 @@ skf_cv = StratifiedKFold(n_splits = 10 , shuffle = True, random_state = 42)
#logo = LeaveOneGroupOut()
########################################################################
# COMPLETE data: No tts_split
########################################################################
#%%
def CMLogoSkf(combined_df
, all_genes = ["embb", "katg", "rpob", "pnca", "gid", "alr"]
@ -125,7 +130,8 @@ def CMLogoSkf(combined_df
tts_split_type = "logo_skf_BT_" + bts_gene
outFile = "/home/tanu/git/Data/ml_combined/" + str(n_tr_genes+1) + "genes_" + tts_split_type + ".csv"
outFile = outdir + str(n_tr_genes+1) + "genes_" + tts_split_type + ".csv"
print(outFile)
#-------