get_all_combinations: Get all compatible combinations.
In comoto-pasteur-fr/DNABarcodeCompatibility: A Tool for Optimizing Combinations of DNA Barcodes Used in Multiplexed Experiments on Next Generation Sequencing Platforms
Description
Usage
Arguments
Details
Value
See Also
Examples
Description
Finds the exhaustive set of compatible barcode combinations.
Usage
1
get_all_combinations(index_df, mplex_level, platform)
Arguments
index_df
A dataframe containing barcodes identifiers, corresponding
DNA sequences along with GC content and presence of homopolymers.
mplex_level
The number at which the barcodes will be multiplexed.
Illumina recommends to not multiplex more than 96 libraries.
platform
An integer representing the number of channels (1, 2, 4)
of the desired Illumina platform: 1 for iSeq; 2 for NextSeq, NovaSeq,
MiniSeq; 4 for HiSeq and MiSeq. 0 represents any other platform than
Illumina.
Details
Be aware that the total number of combinations may become prohibitively
large for large barcode sets and large multiplexing numbers.
Value
A matrix containing the identifiers of compatible barcode combinations.
See Also
Examples
1
get_all_combinations(DNABarcodeCompatibility::IlluminaIndexes, 2, 4)
comoto-pasteur-fr/DNABarcodeCompatibility documentation built on June 21, 2019, 9:21 a.m.
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Description Usage Arguments Details Value See Also Examples
Description
Finds the exhaustive set of compatible barcode combinations.
Usage
1 | get_all_combinations(index_df, mplex_level, platform)
|
Arguments
index_df |
A dataframe containing barcodes identifiers, corresponding DNA sequences along with GC content and presence of homopolymers. |
mplex_level |
The number at which the barcodes will be multiplexed. Illumina recommends to not multiplex more than 96 libraries. |
platform |
An integer representing the number of channels (1, 2, 4) of the desired Illumina platform: 1 for iSeq; 2 for NextSeq, NovaSeq, MiniSeq; 4 for HiSeq and MiSeq. 0 represents any other platform than Illumina. |
Details
Be aware that the total number of combinations may become prohibitively large for large barcode sets and large multiplexing numbers.
Value
A matrix containing the identifiers of compatible barcode combinations.
See Also
Examples
1 | get_all_combinations(DNABarcodeCompatibility::IlluminaIndexes, 2, 4)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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