¶

bash_command¶

source

.bash_command(
   cmd
)

Executes bash command in subprocess

Args

• cmd (str) : bash command to be runned in subprocess

Returns

• 0 : returns 0 if everything's alright

hashrf¶

source

.hashrf(
   file, n_trees, output_file
)

Computes unweighted Robison Foulds distances

Args

• file (str) : name of input file with phylogenetic trees in newick format
• n_trees (int) : number of trees in file
• output_file (str) : name of output file that will contain the distance matrix

Returns

• distance_matrix (pandas.DataFrame) : computed distance matrix

hashrf_weighted¶

source

.hashrf_weighted(
   file, n_trees, output_file
)

Computes weighted Robison Foulds distances

Args

• file (str) : name of input file with phylogenetic trees in newick format
• n_trees (int) : number of trees in file
• output_file (str) : name of output file that will contain the distance matrix

Returns

• distance_matrix (pandas.DataFrame) : computed distance matrix