infer_GO_summaries: Infer Gene Ontology summaries
In tinglab/redPATH: Reconstructing the pseudo development time of cell lineages in single cell RNA-Seq data and applications in cancer.
Description
Usage
Arguments
Examples
Description
Relying on GOsummaries package, word cloud plots are generated using this function.
Usage
1
infer_GO_summaries(gene_cluster, organism = "hsapiens")
Arguments
gene_cluster
Gene cluster classification, with gene names.
organism
Type of species of the genes. Default: "hsapiens"
Examples
1
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3
4
5
selected_result <- gene_selection(full_exprs_matrix, redpath_pseudotime, dcor_result, mic_result, threshold = 0.5)
gene_state_result <- calc_all_hmm_diff_parallel(selected_result, cls_num = 2, threadnum = 4)
inferred_gene_cluster <- get_gene_cluster(sorted_matrix = gene_state_result, cls_num = 2)
GO_summary_result <- infer_GO_summaries(inferred_gene_cluster, organism = "hsapiens")
plot(GO_summary_result, fontsize = 8)
tinglab/redPATH documentation built on May 31, 2019, 10:37 a.m.
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Description Usage Arguments Examples
Description
Relying on GOsummaries package, word cloud plots are generated using this function.
Usage
1 | infer_GO_summaries(gene_cluster, organism = "hsapiens")
|
Arguments
gene_cluster |
Gene cluster classification, with gene names. |
organism |
Type of species of the genes. Default: "hsapiens" |
Examples
1 2 3 4 5 | selected_result <- gene_selection(full_exprs_matrix, redpath_pseudotime, dcor_result, mic_result, threshold = 0.5)
gene_state_result <- calc_all_hmm_diff_parallel(selected_result, cls_num = 2, threadnum = 4)
inferred_gene_cluster <- get_gene_cluster(sorted_matrix = gene_state_result, cls_num = 2)
GO_summary_result <- infer_GO_summaries(inferred_gene_cluster, organism = "hsapiens")
plot(GO_summary_result, fontsize = 8)
|
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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