NEWS

---

simplifyEnrichment 2.0.0

• use **simona** for semantic similarity calculation
• removed similarity functions for DO and based on overlaps (the count)

simplifyEnrichment 1.9.1

• 'term_similarity_from_gmt()': previously forgot to split rows.

simplifyEnrichment 1.7.2

• 'anno_word_cloud()': fixed a bug where 'exclude_words' is not properly passed to internal functions.
• 'simplifyGOFromMultipleLists()': fixed a bug where 'control' is not properly passed to internal functions.
• 'simplifyGOFromMultipleLists()': draw barplots which show numbers of signifiant GO terms in clusters.

simplifyEnrichment 1.5.2

• add 'keyword_enrichment_from_GO()'

simplifyEnrichment 1.5.1

• word cloud supports perform enrichment on keywords
• value_fun in binary_cut() now takes 1-AUC as default

simplifyEnrichment 1.1.4

• add 'export_to_shiny_app()'
• add 'simplifyGOFromMultipleLists()'

simplifyEnrichment 1.1.2

• add 'anno_word_cloud()' function

simplifyEnrichment 0.99.6

• in the clustering, considered when the size of cluster is only 1.
• add 'partition_by_kmeanspp()'.
• 'col' can be set as a vector of colors.

simplifyEnrichment 0.99.4

• support more ontologies.
• support to calculate similarity matrix by gene overlap.
• node partition fun changed to pam