Find the fraction of counts per cell that overlap a given set of genomic ranges
FractionCountsInRegion(object, regions, assay = NULL, ...)
| object | A Seurat object |
|---|---|
| regions | A GRanges object containing a set of genomic regions |
| assay | Name of assay to use |
| ... | Additional arguments passed to |
Returns a numeric vector
FractionCountsInRegion( object = atac_small, assay = 'bins', regions = blacklist_hg19 )#> AAACGAAAGAGCGAAA-1 AAACGAAAGAGTTTGA-1 AAACGAAAGCGAGCTA-1 AAACGAAAGGCTTCGC-1 #> 0.000000000 0.000000000 0.019801980 0.012838802 #> AAACGAAAGTGCTGAG-1 AAACGAACAAGGGTAC-1 AAACGAAGTCAGGCTC-1 AAACGAAGTGCCCGAT-1 #> 0.000000000 0.032608696 0.037037037 0.046511628 #> AAACGAAGTTGTATCG-1 AAACGAATCAGTTGAC-1 AAACGAATCCTTACGC-1 AAACGAATCGTTTGAG-1 #> 0.000000000 0.000000000 0.083333333 0.000000000 #> AAACGAATCTGCCGAG-1 AAACTCGAGATGCGCA-1 AAACTCGAGCATGATA-1 AAACTCGAGCGCATTT-1 #> 0.000000000 0.000000000 0.000000000 0.000000000 #> AAACTCGAGTACTCTG-1 AAACTCGAGTCACGCC-1 AAACTCGAGTCTCTAG-1 AAACTCGCAAAGAGAG-1 #> 0.022727273 0.024390244 0.033333333 0.018348624 #> AAACTCGCAAGCGAAC-1 AAACTCGCACTCAGCG-1 AAACTCGCACTTGCGG-1 AAACTCGCAGCGTCGT-1 #> 0.000000000 0.000000000 0.000000000 0.013888889 #> AAACTCGCATCACAGT-1 AAACTCGCATGTGGGA-1 AAACTCGGTCAGAAGC-1 AAACTCGGTCATAGCT-1 #> 0.043478261 0.006514658 0.000000000 0.023809524 #> AAACTCGGTGGATTCT-1 AAACTCGGTTTGATCG-1 AAACTCGTCAGGTCTA-1 AAACTCGTCCACTAGA-1 #> 0.052631579 0.016483516 0.016666667 0.025000000 #> AAACTCGTCCCAATAG-1 AAACTCGTCGATGTAC-1 AAACTCGTCTGGCACG-1 AAACTCGTCTGGCGCA-1 #> 0.000000000 0.000000000 0.093750000 0.000000000 #> AAACTGCAGAATCAAC-1 AAACTGCAGAGTGGAA-1 AAACTGCAGCAAGGTC-1 AAACTGCAGCTCCATA-1 #> 0.010101010 0.000000000 0.500000000 0.054054054 #> AAACTGCAGTCTGTGT-1 AAACTGCCAACAAACA-1 AAACTGCCAAGAGATT-1 AAACTGCCAAGCCAGA-1 #> 0.400000000 0.014925373 0.000000000 0.100000000 #> AAACTGCCACTTGCGG-1 AAACTGCCATGTATCG-1 AAACTGCGTACTAGAA-1 AAACTGCGTCATAGCT-1 #> 0.000000000 0.142857143 0.030303030 0.037037037 #> AAACTGCGTCATGAGG-1 AAACTGCGTCGATTAC-1 AAACTGCGTGCATTCA-1 AAACTGCGTGCTGAAG-1 #> 0.000000000 0.021739130 0.010989011 0.000000000 #> AAACTGCGTTACCACA-1 AAACTGCTCATTCATC-1 AAACTGCTCCGTACGG-1 AAACTGCTCCTATCCG-1 #> 0.000000000 0.095238095 0.000000000 0.075000000 #> AAACTGCTCGTTCAGA-1 AAACTGCTCTGAGTAC-1 AAAGATGAGAAGGGCG-1 AAAGATGAGCGAGAAA-1 #> 0.041666667 0.000000000 0.042553191 0.000000000 #> AAAGATGAGGCTAAAT-1 AAAGATGAGTCCAGAG-1 AAAGATGAGTCGACCC-1 AAAGATGAGTTATGAG-1 #> 0.051724138 0.007692308 0.041666667 0.000000000 #> AAAGATGCAACCTCTC-1 AAAGATGCAAGGTCGA-1 AAAGATGCAAGTCTGT-1 AAAGATGCACGTTACA-1 #> 0.000000000 0.000000000 0.045454545 0.024793388 #> AAAGATGCAGCAACCC-1 AAAGATGCAGCACATT-1 AAAGATGCAGCGTCGT-1 AAAGATGCATGACTGT-1 #> 0.000000000 0.044117647 0.013333333 0.012048193 #> AAAGATGTCCACACCT-1 AAAGATGTCCTGAAAC-1 AAAGATGTCGCGGCAT-1 AAAGATGTCGCTAGTA-1 #> 0.063492063 0.015873016 0.000000000 0.000000000 #> AAAGATGTCGTCGCAG-1 AAAGATGTCTAGCAGT-1 AAAGGATAGAACCATA-1 AAAGGATAGAGAATTC-1 #> 0.015151515 0.008695652 0.000000000 0.000000000 #> AAAGGATAGAGGAACA-1 AAAGGATAGTCTGGGA-1 AAAGGATAGTGAGTTA-1 AAAGGATCAAGGGAGG-1 #> 0.000000000 0.000000000 0.000000000 0.021276596 #> AAAGGATCACCACCAG-1 AAAGGATCACGTTGTA-1 AAAGGATCAGATGGCA-1 AAAGGATCATGGAGGT-1 #> 0.000000000 0.035714286 0.017094017 0.302325581 #> AAAGGATGTCCCTTTG-1 AAAGGATGTCGTAATC-1 AAAGGATGTCTAAGAA-1 AAAGGATGTCTCAAAC-1 #> 0.038461538 0.066666667 0.021978022 0.000000000 #> AAAGGATGTCTTAGCA-1 AAAGGATGTGGACGAT-1 AAAGGATTCACTACCC-1 AAAGGATTCCAACCTC-1 #> 0.000000000 0.000000000 0.000000000 0.043478261 #> AAAGGATTCCGTCAAA-1 AAAGGATTCCTTACGC-1 AAAGGATTCTATGAGC-1 AAAGGATTCTGAACGT-1 #> 0.000000000 0.014814815 0.039215686 0.008620690