python_93040206/基础信息/test3.py

import pandas as pd
import rpy2.robjects.packages as rpackages
# import rpy2.robjects.pandas2ri as pandas2ri
# from rpy2.robjects import pandas2ri, r
import rpy2.robjects.pandas2ri as pandas2ri

# maf_data = pd.read_csv('example.maf', sep='\t')
maf_data = pd.read_csv('example.maf', sep='\t', comment='#')

# 将pandas DataFrame转换为R的数据框
pandas2ri.activate()
# r_maf_data = pandas2ri.py2ri(maf_data)

# 将 pandas.DataFrame 转换为 R 中的数据框对象
def df_to_r_dataframe(df):
    r_dataframe = pandas2ri.py2ro(df)
    return r_dataframe

print(df_to_r_dataframe(maf_data))


# 加载VariantAnnotation包
utils = rpackages.importr('utils')
utils.chooseCRANmirror(ind=1)
utils.install_packages('VariantAnnotation')
variantannotation = rpackages.importr('VariantAnnotation')


# 将R的数据框转换为VariantAnnotation类对象
maftools_input = variantannotation.data.frame_to_VariantAnnotation(r_maf_data)

print(22, maftools_input)