The main input to oncoEnrichR is a list of human genes, typically the top ranked hits from a high-throughput screen. The gene list can be provided by using any of the following identifiers:
KRAS
)3845
)P01116
)ENSG00000133703
)ENST00000311936
)ENSP00000308495
)NM_004985
)NP_004976
)The type of identifier used should be specified using the --query_id_type
argument. Similarly,
if a background gene set is specified (through the --bgset
argument, for use in enrichment analysis), the identifier type should be set with the --bgset_id_type
argument.
If the user submits gene symbols which are no longer considered as primary gene symbols, oncoEnrichR attempts to map such cases as synonyms/aliases for the primary gene symbols.
In order to keep the size of the HTML output report at a manageable level, there is currently an upper limit of
n = 1000
genes that can be used as input to the tool. Please also note that the tool requires n = 2
input genes at the bare minimum, although some analysis modules will not be included/run with so few genes as input.
IMPORTANT NOTE: Due to its large size, the HTML report can be slow to load when generating full reports with the maximum number of genes (n = 1000). We generally recommend to use oncoEnrichR with smaller querysets (order 100-600), as this will produce reports that can be more efficiently loaded and viewed. If you want to submit a query that pushes the limit (n = 1000), we recommend that you carefully configure the report contents/modules, in that sense producing more managable reports.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.