4 hours ago by
Hello Everyone,
I am trying to add a new column with entrezgene_ids to a grangeslist. I matched the entrezgene_ids to the gene symbol but I got the following warning
"
Warning message:
In recycleSingleBracketReplacementValue(value, x, i) :
number of values supplied is not a sub-multiple of the number of values to be replaced"
when I stored the matched results in my grangeslist, I realized that some of the rows do not have the entrezgene_ids matched to the gene symbol. Has anyone ever encountered this problem? Please help me.
This is my code to match the entrezgene_ids to gene symbols and store them in a new column in grangeslist
GenomicRanges::values([email protected])[,"entrezgene_id"] <- genes$entrezgene_id[match(txgene_df$geneName, genes$external_gene_name)]
This is part of my grangeslist:
seqnames ranges strand | gene_name subclass gene_nameExon feature_type Entrezgene_id
A1BG_exon14c chr19 58346858-58346859 - | A1BG noncds A1BG_exon14c exon 1
A1BG_exon14b chr19 58346860-58347021 - | A1BG noncds A1BG_exon14b exon 1
... ... ... ... . ... ... ... ... ...
A1BG_exon5 chr19 58357585-58357649 - | A1BG noncds A1BG_exon5 exon <NA>
A1BG_exon4 chr19 58357952-58358286 - | A1BG noncds A1BG_exon4 exon <NA>
