NEWS

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GOSemSim 2.31.1

• get_rel_df() to access ontology relation data frame required by the Wang method (2024-08-13, Tue)
• a set of 'OntDb' methods for accessing sqlite data generated by the 'obolite' package (2024-08-13, Tue)
• use yulab.utils::yulab_msg() for startup message (2024-07-26, Fri)

GOSemSim 2.30.0

• Bioconductor RELEASE_3_19 (2024-05-15, Wed)

GOSemSim 2.29.2

• update buildGOmap() parameter to consistent with enricher() and GSEA() (2024-02-06, Tue, #47)

GOSemSim 2.29.1

• extend godata() to support passing a data.frame (can be output of read.gaf() or read.blast2go()) to 'annoDb' (2023-01-16, Tue)
• deprecate 'OrgDb' and introduce new parameter 'annoDb' in godata()
• standardize the output of read.gaf() and read.blast2go()
• optimize buildGOmap()

GOSemSim 2.28.0

• Bioconductor RELEASE_3_18 (2023-10-25, Wed)

GOSemSim 2.27.3

• use check_installed() to check package dependency (2023-09-12, Tue, #43)

GOSemSim 2.27.2

• read.blast2go() to parse 'blast2go' result (2023-07-10, Mon, #41, #42)
• move buildGOmap() and read.gaf() from 'clusterProfiler' (2023-07-10, Mon)

GOSemSim 2.27.1

• semantic similarity measurement support for MPO (2023-04-06, Thu)
• TCSS semantic similarity measurement support for DO and MPO (2023-04-06, Thu)

GOSemSim 2.26.0

• Bioconductor RELEASE_3_17 (2023-05-03, Wed)

GOSemSim 2.24.0

• Bioconductor RELEASE_3_16 (2022-11-02, Wed)

GOSemSim 2.23.1

• Replacing DO.db with HDO.db (2022-07-29, Mon)

GOSemSim 2.22.0

• Bioconductor 3.15 release

GOSemSim 2.21.1

• Avoid eval-parse in load_OrgDb() (2022-01-10, Mon)

GOSemSim 2.20

• Bioconductor 3.14 release

GOSemSim 2.19.1

• TCSS method (@qibaiqi, #35; 2021-08-02, Mon)

GOSemSim 2.18.0

• Bioconductor 3.13 release

GOSemSim 2.17.1

• bug fixed according to the update of GO.db (2020-10-29, Thu)
  • https://github.com/YuLab-SMU/GOSemSim/issues/32

GOSemSim 2.16.0

• Bioconductor 3.12 release (2020-10-28, Wed)

GOSemSim 2.15.2

• new site, https://yulab-smu.top/biomedical-knowledge-mining-book/ for documentation (2020-09-04, Fri)
• update vignette
• update data/gotbl

GOSemSim 2.15.1

• bug fixed of IC method when input IDs contain invalid terms. (2020-07-25, Sat)

GOSemSim 2.14.0

• Bioconductor 3.11 release

GOSemSim 2.13.1

• add new citation (2020-03-19, Thu)
• fixed compiling error due to the change of Rcpp
  • https://github.com/YuLab-SMU/GOSemSim/issues/27

GOSemSim 2.7.1

• mgeneSim and mclusterSim now always return matrix (2018-08-08, Wed)
  • https://www.biostars.org/p/330642/#331598

GOSemSim 2.5.1

• return NA for deprecated IDs (2018-01-09, Fri)
  • https://support.bioconductor.org/p/105822/#105840