GOpro: GOpro: find the most characteristic gene ontology terms for...
In mi2-warsaw/GOpro: Find the most characteristic gene ontology terms for groups of human genes
Description
Based on the gene expressions find the structure somewhat
comparable to gene signature. From all given genes,
determine which are significantly different between sets.
These sets may relate to different health conditions of patients,
i.e. different types of cancer.
Then divide interesting genes into subsets.
Genes belong to a particular subset if they share the same feature.
There are two implemented methods that can be used to create
genes' subsets.
The first method is so-called all pairwise comparisons by
Tukey's procedure.
Genes that have the same profile (a result of all comparisons)
are assigned to one subset.
The second way of determining subsets is a method of
hierarchical clustering.
When all genes are divided into subsets, then
for each subset all relevant GO terms are searched for
in org.Hs.eg.db database.
Each found GO terms is tested using Fisher's test to find out
which of them are the most characteristic for the given subset of genes.
See Also
findGO
mi2-warsaw/GOpro documentation built on May 22, 2019, 8:57 p.m.
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Description
Based on the gene expressions find the structure somewhat comparable to gene signature. From all given genes, determine which are significantly different between sets. These sets may relate to different health conditions of patients, i.e. different types of cancer. Then divide interesting genes into subsets. Genes belong to a particular subset if they share the same feature. There are two implemented methods that can be used to create genes' subsets. The first method is so-called all pairwise comparisons by Tukey's procedure. Genes that have the same profile (a result of all comparisons) are assigned to one subset. The second way of determining subsets is a method of hierarchical clustering. When all genes are divided into subsets, then for each subset all relevant GO terms are searched for in org.Hs.eg.db database. Each found GO terms is tested using Fisher's test to find out which of them are the most characteristic for the given subset of genes.
See Also
findGO
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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