Internally filter each element of a GenomicRangesList

filtereach(x, ...)

Arguments

x: GRangesList object
...: Logical conditions to filter each element in the GRanges by. Multiple conditions can be provided as comma-delimited inputs

Value

Filtered GRangesList object

Author

Fursham Hamid

Examples

# Load dataset
data(query_exons)

# select first element of each GRangesList item
filtereach(query_exons, dplyr::row_number() == 1)
#> GRangesList object of length 4:
#> $transcript1
#> GRanges object with 1 range and 6 metadata columns:
#>       seqnames            ranges strand |     type transcript_id
#>          <Rle>         <IRanges>  <Rle> | <factor>   <character>
#>   [1]    chr10 79854427-79854721      + |     exon   transcript1
#>                     gene_id old_gene_id match_level   gene_name
#>                 <character> <character>   <numeric> <character>
#>   [1] ENSMUSG00000006498.14       GeneA           4       Ptbp1
#>   -------
#>   seqinfo: 1 sequence from an unspecified genome; no seqlengths
#> 
#> $transcript2
#> GRanges object with 1 range and 6 metadata columns:
#>       seqnames            ranges strand |     type transcript_id
#>          <Rle>         <IRanges>  <Rle> | <factor>   <character>
#>   [1]    chr10 79854629-79854721      + |     exon   transcript2
#>                     gene_id old_gene_id match_level   gene_name
#>                 <character> <character>   <numeric> <character>
#>   [1] ENSMUSG00000006498.14       GeneA           4       Ptbp1
#>   -------
#>   seqinfo: 1 sequence from an unspecified genome; no seqlengths
#> 
#> $transcript3
#> GRanges object with 1 range and 6 metadata columns:
#>       seqnames            ranges strand |     type transcript_id
#>          <Rle>         <IRanges>  <Rle> | <factor>   <character>
#>   [1]    chr10 79854652-79854721      + |     exon   transcript3
#>                     gene_id old_gene_id match_level   gene_name
#>                 <character> <character>   <numeric> <character>
#>   [1] ENSMUSG00000006498.14       GeneA           4       Ptbp1
#>   -------
#>   seqinfo: 1 sequence from an unspecified genome; no seqlengths
#> 
#> $transcript4
#> GRanges object with 1 range and 6 metadata columns:
#>       seqnames            ranges strand |     type transcript_id
#>          <Rle>         <IRanges>  <Rle> | <factor>   <character>
#>   [1]    chr10 79854668-79854721      + |     exon   transcript4
#>                     gene_id old_gene_id match_level   gene_name
#>                 <character> <character>   <numeric> <character>
#>   [1] ENSMUSG00000006498.14       GeneA           4       Ptbp1
#>   -------
#>   seqinfo: 1 sequence from an unspecified genome; no seqlengths
#>