kernelizeToPython {macat} | R Documentation

## Smooth expression values and write to file

### Description

Smoothes expression data for one chromosome and writes the result into a text file, which can be read into PYTHON, or returns it without writing. 'kernelizeToPython' is the one-chromosome version of `kernelizeAll`.

### Usage

    kernelizeToPython(data, chrom, step.width = 1e+05, kernel = rbf,
                      kernelparams = list(gamma = 1/10^13), saveToFile = TRUE)

### Arguments

`data` | MACATData Object
`chrom` | kernelize all genes that are on this chromosome
`step.width` | widtrh of interploation steps
`kernel` | kernel function one of rbf, kNN, basePairDistance or your own
`kernelparams` | list of named kernel parameters
`saveToFile` | logical indicating wether to save as flat file or not

### Details

filename of the flatfile: `kernelized_seq_chrom_<chrom>.py` where <chrom> is the name of the chromosome.

### Value

returns kernelized expression matrix

### Author(s)

The MACAT Development team

### See Also

`pydata`, `kernelizeAll`

### Examples

      data(stjd)
      kernelized = kernelizeToPython(stjd, 3)

[Package macat version 1.10.0 Index]