accessors {TAPseq} | R Documentation

## Accessors for TsIO objects

### Description

A set of functions for getting/setting/modifying the data stored in `TsIO` or `TsIOList` class objects.

### Usage

    sequence_id(x)

    sequence_id(x) <- value

    target_sequence(x)

    target_sequence(x) <- value

    beads_oligo(x)

    beads_oligo(x) <- value

    reverse_primer(x)

    reverse_primer(x) <- value

    target_annot(x)

    target_annot(x) <- value

    product_size_range(x)

    product_size_range(x) <- value

    primer_num_return(x)

    primer_num_return(x) <- value

    min_primer_region(x)

    min_primer_region(x) <- value

    primer_opt_tm(x)

    primer_opt_tm(x) <- value

    primer_min_tm(x)

    primer_min_tm(x) <- value

    primer_max_tm(x)

    primer_max_tm(x) <- value

    sequence_template(x)

    tapseq_primers(x)

    pcr_products(x)

### Arguments

`x` | A `TsIO` or `TsIOList` class object.
`value` | A valid value to assign to the chosen slot.

### Value

Returns the stored value(s) of a slot, or sets a new value

### Examples

    # chr11 primers example data
    data("chr11_primers")

    # slot values of TsIO objects can be accessed using accessor functions
    tsio <- chr11_primers[[1]]
    sequence_id(tsio)
    sequence_id(tsio) <- "Gene1"
    sequence_id(tsio)

    # some slots can only be obtained, but not set as filling these is part of the TAPseq workflow
    tapseq_primers(tsio)
    pcr_products(tsio)

    # sequence templates can be created
    sequence_template(tsio)

    # values of TsIOList object slots can be extracted as well, but not set
    tsio_list <- chr11_primers[1:2]
    sequence_id(tsio_list)
    target_sequence(tsio_list)
    target_annot(tsio_list)
    tapseq_primers(tsio_list)
    pcr_products(tsio_list)
    sequence_template(tsio_list)

[Package TAPseq version 0.99.6 Index]