topSeqs: Top sequences
In LymphoSeq: Analyze high-throughput sequencing of T and B cell receptors
Description
Usage
Arguments
Value
See Also
Examples
Description
Creates a data frame of a selected number of top productive sequences
from a list of data frames.
Usage
1
topSeqs(productive.seqs, top = 1)
Arguments
productive.seqs
A list data frames of productive sequences generated
by the LymphoSeq function productiveSeq. "frequencyCount" and "aminoAcid"
are a required columns.
top
The number of top productive sequences in each data frame to subset
by their frequencies.
Value
Returns a data frame of a selected number of top productive sequences
from a list of data frames.
See Also
Examples
1
2
3
4
5
6
7
file.path <- system.file("extdata", "TCRB_sequencing", package = "LymphoSeq")
file.list <- readImmunoSeq(path = file.path)
productive.aa <- productiveSeq(file.list = file.list, aggregate = "aminoAcid")
top.seqs <- topSeqs(productive.seqs = productive.aa, top = 1)
Example output
Loading required package: LymphoSeqDB
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
LymphoSeq documentation built on Nov. 8, 2020, 8:09 p.m.
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.
Description Usage Arguments Value See Also Examples
Description
Creates a data frame of a selected number of top productive sequences from a list of data frames.
Usage
1 | topSeqs(productive.seqs, top = 1)
|
Arguments
productive.seqs |
A list data frames of productive sequences generated by the LymphoSeq function productiveSeq. "frequencyCount" and "aminoAcid" are a required columns. |
top |
The number of top productive sequences in each data frame to subset by their frequencies. |
Value
Returns a data frame of a selected number of top productive sequences from a list of data frames.
See Also
Examples
1 2 3 4 5 6 7 | file.path <- system.file("extdata", "TCRB_sequencing", package = "LymphoSeq")
file.list <- readImmunoSeq(path = file.path)
productive.aa <- productiveSeq(file.list = file.list, aggregate = "aminoAcid")
top.seqs <- topSeqs(productive.seqs = productive.aa, top = 1)
|
Example output
Loading required package: LymphoSeqDB
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.