get_comigrations_by_name {XINA} | R Documentation |
'get_comigrations_by_name' finds proteins comigrated with the given proteins
get_comigrations_by_name(clustering_result, selected_conditions, protein_list, cex = 0.7, alpha = 0.3)
clustering_result |
A list containing XINA clustering results. See xina_clustering |
selected_conditions |
A vector of condition names used in XINA clustering results. The number of selected conditions should be at least two. |
protein_list |
A vector containing gene names. |
cex |
Size of cluster number on block axis. Default if 0.7. See alluvial |
alpha |
Transparency of alluvia colors. Default is 0.3. See alluvial |
An alluvial plot displaying comigrations and the data frame containing comigrations of the input proteins
# load XINA example data data(xina_example) # the clustering result table all_proteins <- as.character(example_clusters$aligned$`Gene name`) # get a vector of experimental conditions analyzed in the clustering results classes <- as.vector(example_clusters$condition) comigrated_prots_all <- get_comigrations_by_name(example_clusters, classes, all_proteins[1:3])