Skip to content

mecfs_bio.analysis.csf_coloc_analysis

Driver to colocalize each trait with the Western et al. 2024 CSF aptamers: raw results and display table per trait.

Alzheimer's runs first as the positive control (main() runs only it); the other traits and the exploratory DecodeME runs are started explicitly once its results have been checked against Western et al.'s reported AD proteins.

Functions:

main 

main() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
96
97
def main() -> None:
    run_bellenguez_alzheimers_csf_coloc()

run_bellenguez_alzheimers_csf_coloc 

run_bellenguez_alzheimers_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
54
55
def run_bellenguez_alzheimers_csf_coloc() -> None:
    _run(BELLENGUEZ_ALZHEIMERS_CSF_COLOC)

run_decode_me_csf_coloc 

run_decode_me_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
58
59
def run_decode_me_csf_coloc() -> None:
    _run(DECODE_ME_CSF_COLOC)

run_decode_me_csf_coloc_exploratory 

run_decode_me_csf_coloc_exploratory() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
62
63
64
def run_decode_me_csf_coloc_exploratory() -> None:
    _run(DECODE_ME_CSF_COLOC_LEAD_P_1E_6)
    _run(DECODE_ME_CSF_COLOC_LEAD_P_1E_5)

run_liu_et_al_2023_ibd_csf_coloc 

run_liu_et_al_2023_ibd_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
75
76
def run_liu_et_al_2023_ibd_csf_coloc() -> None:
    _run(LIU_ET_AL_2023_IBD_CSF_COLOC)

run_nalls_2019_parkinsons_csf_coloc 

run_nalls_2019_parkinsons_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
83
84
def run_nalls_2019_parkinsons_csf_coloc() -> None:
    _run(NALLS_2019_PARKINSONS_CSF_COLOC)

run_pain_csf_coloc 

run_pain_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
91
92
93
def run_pain_csf_coloc() -> None:
    _run(KERREBIJN_FIBRO_CSF_COLOC)
    _run(JOHNSTON_PAIN_CSF_COLOC)

run_pgc_2022_sch_csf_coloc 

run_pgc_2022_sch_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
79
80
def run_pgc_2022_sch_csf_coloc() -> None:
    _run(PGC_2022_SCH_CSF_COLOC)

run_ra_seropositive_csf_coloc 

run_ra_seropositive_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
67
68
def run_ra_seropositive_csf_coloc() -> None:
    _run(RA_SEROPOSITIVE_CSF_COLOC)

run_van_rheenen_2021_als_csf_coloc 

run_van_rheenen_2021_als_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
87
88
def run_van_rheenen_2021_als_csf_coloc() -> None:
    _run(VAN_RHEENEN_2021_ALS_CSF_COLOC)

run_willer_ldl_csf_coloc 

run_willer_ldl_csf_coloc() -> None
Source code in mecfs_bio/analysis/csf_coloc_analysis.py 
71
72
def run_willer_ldl_csf_coloc() -> None:
    _run(WILLER_LDL_CSF_COLOC)