goatools¶
Description¶
Process over- and under-representation of certain GO terms, based on Fisher's exact test. With numerous multiple correction routines including locally implemented routines for Bonferroni, Sidak, Holm, and false discovery rate. Also included are multiple test corrections from statsmodels: FDR Benjamini/Hochberg, FDR Benjamini/Yekutieli, Holm-Sidak, Simes-Hochberg, Hommel, FDR 2-stage Benjamini-Hochberg, FDR 2-stage Benjamini-Krieger-Yekutieli, FDR adaptive Gavrilov-Benjamini-Sarkar, Bonferroni, Sidak, and Holm. Cit: Klopfenstein DV, Zhang L, Pedersen BS, ... Tang H GOATOOLS: A Python library for Gene Ontology analyses Scientific reports | (2018) 8:10872 | DOI:10.1038/s41598-018-28948-z
Environment Modules¶
Run module spider goatools to find out what environment modules are available for this application.
Environment Variables¶
- HPC_GOATOOLS_DIR - Installation directory
- HPC_GOATOOLS_BIN - Executable directory
Citation¶
If you publish research that uses goatools you have to cite it as follows:
Cite: Klopfenstein DV, Zhang L, Pedersen BS, ... Tang H GOATOOLS: A Python library for Gene Ontology analyses Scientific reports
Categories¶
biology, ontology