I have a set of gene symbols ~10,000. The data has some noise in the form of the wrong gene symbols(Genes not belonging to human). I need to filter out only those, that belongs to the human genome. What could be the possible library of python or R which could help me in doing so?
The gene symbols or gene must be arranged in a certain format or in tab-separated columns??
If it is the case then match human-only genes and write a new file using the "awk" command.
Just load your ids in STringdb, select your organism as HUman and perform any enrichment analysis. In next step you will given two separate list viz Human and non-human (unidentified tag). Download them separately
Hi,
You can use Ensembl database of human genome:
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# installation in R
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EnsDb.Hsapiens.v75")
library(EnsDb.Hsapiens.v75)
# get gene names and ID's
genes
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