micom.algorithms#

Implements additional analysis algorithms for communities.

Module Contents#

Functions#

jaccard(inclusion)

Calculate jaccard distances for a community.

euclidean(inclusion)

Calculate euclidean distances for a community.

reaction_matrix(files)

Create a matrix of reactions x models.

metabolic_dist(reactions, metric=jaccard)

Calculate the metabolic distances between all members.

micom.algorithms.jaccard(inclusion)[source]#

Calculate jaccard distances for a community.

micom.algorithms.euclidean(inclusion)[source]#

Calculate euclidean distances for a community.

micom.algorithms.reaction_matrix(files)[source]#

Create a matrix of reactions x models.

micom.algorithms.metabolic_dist(reactions, metric=jaccard)[source]#

Calculate the metabolic distances between all members.