1) calculate a statistic for each gene representing the differential expression between 2 cell states.
2) use the statistic calculated in 1), along with a set of genes defining a pathway, to calculate an enrichment score.
3) use a null distribution to determine how likely it would be to see this enrichment score by chance
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hi, i have more than 8+ years of experience in R Programming. i can provide you best suitable solution for your requirement. looking forward for more discussion