These changes rework the gene dataframe input, combining the cnas and snvs dataframes into one genes dataframe.
gene
node
cn
ABC
1
gain
DEF
1
loss
GHI
1
NA
JKL
2
gain
MNO
2
gain
For now, the format changed as little as possible from the original dataframes. The cn column may need to be changed in the future to allow more flexibility. For now, values of gain and loss are retained from the cnas dataframe, and SNVs are indicated with a value of NA.
These changes also include refactors to some node preparation helper functions that needed to also be applied to the gene input. The related issue #12 was also fixed.
These changes rework the gene dataframe input, combining the
cnasandsnvsdataframes into onegenesdataframe.For now, the format changed as little as possible from the original dataframes. The
cncolumn may need to be changed in the future to allow more flexibility. For now, values ofgainandlossare retained from thecnasdataframe, and SNVs are indicated with a value ofNA.These changes also include refactors to some node preparation helper functions that needed to also be applied to the gene input. The related issue #12 was also fixed.