get_gene_fold_changes

Extracts the fold change and p-values across the SkeletalVis database for the specified genes.

Allows search and visualisation of a collection of uniformly processed skeletal transcriptomic datasets. Includes methods to identify datasets where genes of interest are differentially expressed and find datasets with a similar gene expression pattern to a query dataset Soul J, Hardingham TE, Boot-Handford RP, Schwartz JM (2019) <doi:10.1093/bioinformatics/bty947>.

Jamie Soul

SkeletalVis

Exploration and Visualisation of Skeletal Transcriptomics Data

get_gene_fold_changes function

<dl><dt>skeletalvis</dt>
<dd>The path to the SkeletalVis data folder.</dd>
<dt>gene_symbols</dt>
<dd>The human gene symbols to extract fold change and FDR values for.</dd>
<dt>return_fdr</dt>
<dd>Return FDR values (FALSE by default).</dd>
<dt>add_meta_data</dt>
<dd>Add metadata such as species, tissue, description of overall experiment and specific comparison</dd></dl>

Arguments

Get gene differential expression results for genes of interest — get_gene_fold_changes

<dl>

<dt>skeletalvis</dt>
<dd>The path to the SkeletalVis data folder.</dd>


<dt>gene_symbols</dt>
<dd>The human gene symbols to extract fold change and FDR values for.</dd>


<dt>return_fdr</dt>
<dd>Return FDR values (FALSE by default).</dd>


<dt>add_meta_data</dt>
<dd>Add metadata such as species, tissue, description of overall experiment and specific comparison</dd>

</dl>

get_gene_fold_changes: Get gene differential expression results for genes of interest

Description

Usage

Value

Arguments

Examples