Calculate, for each cell, the mean expression of the given set of marker genes.
meanGeneExpression(seurat, genes)
| seurat | Seurat object |
|---|---|
| genes | String or character vector specifying gene(s) to use |
Data frame with two columns: "Cell" which specifies the cell ID
obtained from colnames(seurat@data), and "Mean_marker_expression"
which is the expression value for the marker gene, or mean if multiple
genes were provided.
#> Cell Mean_marker_expression #> 1 ATGCCAGAACGACT 2.484410 #> 2 CATGGCCTGTGCAT 0.000000 #> 3 GAACCTGATGAACC 3.471312 #> 4 TGACTGGATTCTCA 3.223591 #> 5 AGTCAGACTGCACA 2.037100 #> 6 TCTGATACACGTGT 0.000000 #> 7 TGGTATCTAAACAG 3.076100 #> 8 GCAGCTCTGTTTCT 3.017342 #> 9 GATATAACACGCAT 0.000000 #> 10 AATGTTGACAGTCA 2.853555 #> 11 AGGTCATGAGTGTC 2.889724 #> 12 AGAGATGATCTCGC 2.330359 #> 13 GGGTAACTCTAGTG 2.992018 #> 14 CATGAGACACGGGA 3.333042 #> 15 TACGCCACTCCGAA 2.656653 #> 16 CTAAACCTGTGCAT 2.595287 #> 17 GTAAGCACTCATTC 3.053245 #> 18 TTGGTACTGAATCC 2.847365 #> 19 CATCATACGGAGCA 2.768991 #> 20 TACATCACGCTAAC 2.810616 #> 21 TTACCATGAATCGC 0.000000 #> 22 ATAGGAGAAACAGA 0.000000 #> 23 GCGCACGACTTTAC 0.000000 #> 24 ACTCGCACGAAAGT 0.000000 #> 25 ATTACCTGCCTTAT 1.558937 #> 26 CCCAACTGCAATCG 0.000000 #> 27 AAATTCGAATCACG 0.000000 #> 28 CCATCCGATTCGCC 0.000000 #> 29 TCCACTCTGAGCTT 0.000000 #> 30 CATCAGGATGCACA 0.000000 #> 31 CTAAACCTCTGACA 0.000000 #> 32 GATAGAGAAGGGTG 2.582144 #> 33 CTAACGGAACCGAT 0.000000 #> 34 AGATATACCCGTAA 2.796201 #> 35 TACTCTGAATCGAC 2.775336 #> 36 GCGCATCTTGCTCC 0.000000 #> 37 GTTGACGATATCGG 0.000000 #> 38 ACAGGTACTGGTGT 0.000000 #> 39 GGCATATGCTTATC 0.000000 #> 40 CATTACACCAACTG 2.702506 #> 41 TAGGGACTGAACTC 3.120937 #> 42 GCTCCATGAGAAGT 2.944040 #> 43 TACAATGATGCTAG 3.069902 #> 44 CTTCATGACCGAAT 0.000000 #> 45 CTGCCAACAGGAGC 3.087364 #> 46 TTGCATTGAGCTAC 2.288148 #> 47 AAGCAAGAGCTTAG 3.083958 #> 48 CGGCACGAACTCAG 3.307149 #> 49 GGTGGAGATTACTC 2.843687 #> 50 GGCCGATGTACTCT 2.312536 #> 51 CGTAGCCTGTATGC 0.000000 #> 52 TGAGCTGAATGCTG 0.000000 #> 53 CCTATAACGAGACG 0.000000 #> 54 ATAAGTTGGTACGT 0.000000 #> 55 AAGCGACTTTGACG 0.000000 #> 56 ACCAGTGAATACCG 0.000000 #> 57 ATTGCACTTGCTTT 1.520360 #> 58 CTAGGTGATGGTTG 1.730742 #> 59 GCACTAGACCTTTA 0.000000 #> 60 CATGCGCTAGTCAC 0.000000 #> 61 TTGAGGACTACGCA 0.000000 #> 62 ATACCACTCTAAGC 0.000000 #> 63 CATATAGACTAAGC 0.000000 #> 64 TTTAGCTGTACTCT 0.000000 #> 65 GACATTCTCCACCT 1.261578 #> 66 ACGTGATGCCATGA 0.000000 #> 67 ATTGTAGATTCCCG 0.000000 #> 68 GATAGAGATCACGA 1.724800 #> 69 AATGCGTGGACGGA 0.000000 #> 70 GCGTAAACACGGTT 0.000000 #> 71 ATTCAGCTCATTGG 0.000000 #> 72 GGCATATGGGGAGT 0.000000 #> 73 ATCATCTGACACCA 0.000000 #> 74 GTCATACTTCGCCT 0.000000 #> 75 TTACGTACGTTCAG 0.000000 #> 76 GAGTTGTGGTAGCT 0.000000 #> 77 GACGCTCTCTCTCG 0.000000 #> 78 AGTCTTACTTCGGA 0.000000 #> 79 GGAACACTTCAGAC 0.000000 #> 80 CTTGATTGATCTTC 1.891167