A B D E G H I L N P R S T U V W X Y

A

add(Datum<int[]>) - Method in class smile.data.BinarySparseDataset

Add a datum item into the dataset.

add(Datum<E>) - Method in class smile.data.Dataset

Add a datum item into the dataset.

add(E) - Method in class smile.data.Dataset

Add a datum item into the dataset.

add(E, int) - Method in class smile.data.Dataset

Add a datum item into the dataset.

add(E, int, double) - Method in class smile.data.Dataset

Add a datum item into the dataset.

add(E, double) - Method in class smile.data.Dataset

Add a datum item into the dataset.

add(E, double, double) - Method in class smile.data.Dataset

Add a datum item into the dataset.

ArffParser - Class in smile.data.parser

Weka ARFF (attribute relation file format) file parser.

ArffParser() - Constructor for class smile.data.parser.ArffParser

Constructor.

Attribute - Class in smile.data

Generic class to represent a named attribute/variable.

Attribute(Attribute.Type, String) - Constructor for class smile.data.Attribute

Constructor.

Attribute(Attribute.Type, String, double) - Constructor for class smile.data.Attribute

Constructor.

Attribute(Attribute.Type, String, String) - Constructor for class smile.data.Attribute

Constructor.

Attribute(Attribute.Type, String, String, double) - Constructor for class smile.data.Attribute

Constructor.

Attribute.Type - Enum in smile.data

The type of attributes.

AttributeDataset - Class in smile.data

A dataset of fixed number of attributes.

AttributeDataset(String, Attribute[]) - Constructor for class smile.data.AttributeDataset

Constructor.

AttributeDataset(String, Attribute[], Attribute) - Constructor for class smile.data.AttributeDataset

Constructor.

attributes() - Method in class smile.data.AttributeDataset

Returns the list of attributes in this dataset.

B

BinarySparseDataset - Class in smile.data

Binary sparse dataset.

BinarySparseDataset() - Constructor for class smile.data.BinarySparseDataset

Constructor.

BinarySparseDataset(String) - Constructor for class smile.data.BinarySparseDataset

Constructor.

BinarySparseDataset(String, Attribute) - Constructor for class smile.data.BinarySparseDataset

Constructor.

BinarySparseDataset(int) - Constructor for class smile.data.BinarySparseDataset

Constructor.

BinarySparseDatasetParser - Class in smile.data.parser

Parser for binary spare dataset.

BinarySparseDatasetParser() - Constructor for class smile.data.parser.BinarySparseDatasetParser

Constructor.

D

Dataset<E> - Class in smile.data

A set of data objects.

Dataset() - Constructor for class smile.data.Dataset

Constructor.

Dataset(String) - Constructor for class smile.data.Dataset

Constructor.

Dataset(Attribute) - Constructor for class smile.data.Dataset

Constructor.

Dataset(String, Attribute) - Constructor for class smile.data.Dataset

Constructor.

DateAttribute - Class in smile.data

Data attribute.

DateAttribute(String) - Constructor for class smile.data.DateAttribute

Constructor.

DateAttribute(String, double) - Constructor for class smile.data.DateAttribute

Constructor.

DateAttribute(String, String, double) - Constructor for class smile.data.DateAttribute

Constructor.

DateAttribute(String, String, String) - Constructor for class smile.data.DateAttribute

Constructor.

DateAttribute(String, String, double, String) - Constructor for class smile.data.DateAttribute

Constructor.

Datum<T> - Class in smile.data

An object of generic datum and optional weight.

Datum(T) - Constructor for class smile.data.Datum

Constructor.

Datum(T, double) - Constructor for class smile.data.Datum

Constructor.

Datum(T, double, double) - Constructor for class smile.data.Datum

Constructor.

DelimitedTextParser - Class in smile.data.parser

The delimited text file parser.

DelimitedTextParser() - Constructor for class smile.data.parser.DelimitedTextParser

Constructor with default delimiter of white space, comment line starting with '%', missing value placeholder "?", no column names, no row names.

description - Variable in class smile.data.Attribute

The detailed description of the attribute.

description - Variable in class smile.data.Datum

Optional detailed description.

E

equals(Object) - Method in class smile.data.Attribute

G

GCTParser - Class in smile.data.parser.microarray

Gene Cluster Text file parser.

GCTParser() - Constructor for class smile.data.parser.microarray.GCTParser

Constructor.

get(int, int) - Method in class smile.data.BinarySparseDataset

Returns the value at entry (i, j) by binary search.

get(int) - Method in class smile.data.Dataset

Returns the element at the specified position in this dataset.

get(int) - Method in class smile.data.SparseDataset

Returns the element at the specified position in this dataset.

get(int, int) - Method in class smile.data.SparseDataset

Returns the value at entry (i, j).

getAttributes(URI) - Static method in class smile.data.parser.ArffParser

Returns the attribute set of given URI.

getAttributes(String) - Static method in class smile.data.parser.ArffParser

Returns the attribute set of given file.

getAttributes(File) - Static method in class smile.data.parser.ArffParser

Returns the attribute set of given file.

getAttributes(InputStream) - Static method in class smile.data.parser.ArffParser

Returns the attribute set of given stream.

getCommentStartWith() - Method in class smile.data.parser.DelimitedTextParser

Returns the character/string that starts a comment line.

getDelimiter() - Method in class smile.data.parser.DelimitedTextParser

Returns the delimiter character/string.

getDescription() - Method in class smile.data.Dataset

Returns the detailed dataset description.

getDescription() - Method in class smile.data.SparseDataset

Returns the detailed dataset description.

getFormat() - Method in class smile.data.DateAttribute

Returns the date string formatter.

getMissingValuePlaceholder() - Method in class smile.data.parser.DelimitedTextParser

Returns the missing value placeholder.

getName() - Method in class smile.data.Dataset

Returns the dataset name.

getName() - Method in class smile.data.SparseDataset

Returns the dataset name.

getResponseIndex() - Method in class smile.data.parser.ArffParser

Returns the column index (starting at 0) of dependent/response variable.

H

hasColumnNames() - Method in class smile.data.parser.DelimitedTextParser

Returns if the dataset has column namesS (at row 0).

hashCode() - Method in class smile.data.Attribute

hasRowNames() - Method in class smile.data.parser.DelimitedTextParser

Returns if the dataset has row names (at column 0).

I

IOUtils - Class in smile.data.parser

Simple IO stream manipulation utilities.

IOUtils() - Constructor for class smile.data.parser.IOUtils

isOpen() - Method in class smile.data.NominalAttribute

Returns true if the string values of the nominal attribute is a open set.

isOpen() - Method in class smile.data.StringAttribute

Returns true if the string values of the nominal attribute is a open set.

iterator() - Method in class smile.data.Dataset

Returns an iterator over the elements in this dataset in proper sequence.

iterator() - Method in class smile.data.SparseDataset

Returns an iterator over the elements in this dataset in proper sequence.

L

length() - Method in class smile.data.SparseDataset

Returns the number of nonzero entries.

LibsvmParser - Class in smile.data.parser

LIBSVM (and SVMLight) data parser.

LibsvmParser() - Constructor for class smile.data.parser.LibsvmParser

Constructor.

N

name - Variable in class smile.data.Attribute

The name of attribute.

name - Variable in class smile.data.Datum

Name of datum.

ncols() - Method in class smile.data.BinarySparseDataset

Returns the number of columns.

ncols() - Method in class smile.data.SparseDataset

Returns the number of columns.

NominalAttribute - Class in smile.data

Nominal attribute.

NominalAttribute(String) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, double) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, String) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, String, double) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, String[]) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, double, String[]) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, String, String[]) - Constructor for class smile.data.NominalAttribute

Constructor.

NominalAttribute(String, String, double, String[]) - Constructor for class smile.data.NominalAttribute

Constructor.

NumericAttribute - Class in smile.data

Numeric attribute.

NumericAttribute(String) - Constructor for class smile.data.NumericAttribute

Constructor.

NumericAttribute(String, double) - Constructor for class smile.data.NumericAttribute

Constructor.

NumericAttribute(String, String) - Constructor for class smile.data.NumericAttribute

Constructor.

NumericAttribute(String, String, double) - Constructor for class smile.data.NumericAttribute

Constructor.

P

parse(URI) - Method in class smile.data.parser.ArffParser

Parse a dataset from given URI.

parse(String) - Method in class smile.data.parser.ArffParser

Parse a dataset from given file.

parse(File) - Method in class smile.data.parser.ArffParser

Parse a dataset from given file.

parse(InputStream) - Method in class smile.data.parser.ArffParser

Parse a dataset from given stream.

parse(URI) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from given URI.

parse(String) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from given file.

parse(String, String) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from given file.

parse(File) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from given file.

parse(String, File) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from given file.

parse(InputStream) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from an input stream.

parse(String, InputStream) - Method in class smile.data.parser.BinarySparseDatasetParser

Parse a binary sparse dataset from an input stream.

parse(URI) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from given URI.

parse(String, Attribute[], URI) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from given URI.

parse(String) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from given file.

parse(String, Attribute[], String) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from given file.

parse(File) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from given file.

parse(String, Attribute[], File) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from given file.

parse(String, InputStream) - Method in class smile.data.parser.DelimitedTextParser

Parse a dataset from an input stream.

parse(URI) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from given URI.

parse(String) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from given file.

parse(String, String) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from given file.

parse(File) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from given file.

parse(String, File) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from given file.

parse(String, InputStream) - Method in class smile.data.parser.LibsvmParser

Parse a libsvm sparse dataset from an input stream.

parse(URI) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from given URI.

parse(String) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from given file.

parse(String, String) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from given file.

parse(File) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from given file.

parse(String, File) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from given file.

parse(String, InputStream) - Method in class smile.data.parser.microarray.GCTParser

Parse a GCT dataset from an input stream.

parse(URI) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from given URI.

parse(String) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from given file.

parse(String, String) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from given file.

parse(File) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from given file.

parse(String, File) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from given file.

parse(String, InputStream) - Method in class smile.data.parser.microarray.PCLParser

Parse a PCL dataset from an input stream.

parse(URI) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from given URI.

parse(String) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from given file.

parse(String, String) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from given file.

parse(File) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from given file.

parse(String, File) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from given file.

parse(String, InputStream) - Method in class smile.data.parser.microarray.RESParser

Parse a RES dataset from an input stream.

parse(URI) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from given URI.

parse(String) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from given file.

parse(String, String) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from given file.

parse(File) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from given file.

parse(String, File) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from given file.

parse(String, InputStream) - Method in class smile.data.parser.microarray.TXTParser

Parse a TXT dataset from an input stream.

parse(URI) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from given URI.

parse(String, URI) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from given URI.

parse(String) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from given file.

parse(String, String) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from given file.

parse(File) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from given file.

parse(String, File) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from given file.

parse(InputStream) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from an input stream.

parse(String, InputStream) - Method in class smile.data.parser.SparseDatasetParser

Parse a sparse dataset from an input stream.

parse(URI) - Method in class smile.data.parser.SparseMatrixParser

Parse a Harwell-Boeing column-compressed sparse matrix dataset from given URI.

parse(String) - Method in class smile.data.parser.SparseMatrixParser

Parse a Harwell-Boeing column-compressed sparse matrix dataset from given file.

parse(File) - Method in class smile.data.parser.SparseMatrixParser

Parse a Harwell-Boeing column-compressed sparse matrix dataset from given file.

parse(InputStream) - Method in class smile.data.parser.SparseMatrixParser

Parse a Harwell-Boeing column-compressed sparse matrix dataset from an input stream.

PCLParser - Class in smile.data.parser.microarray

Stanford cDNA file parser.

PCLParser() - Constructor for class smile.data.parser.microarray.PCLParser

Constructor.

R

readLines(InputStream) - Static method in class smile.data.parser.IOUtils

Returns the lines of an InputStream as a list of Strings.

readLines(InputStream, Charset) - Static method in class smile.data.parser.IOUtils

Returns the lines of an InputStream as a list of Strings.

readLines(Reader) - Static method in class smile.data.parser.IOUtils

Returns the lines of a Reader as a list of Strings.

remove(int) - Method in class smile.data.Dataset

Removes the element at the specified position in this dataset.

remove(int) - Method in class smile.data.SparseDataset

Removes the element at the specified position in this dataset.

RESParser - Class in smile.data.parser.microarray

ExpRESsion (with P and A calls) file parse.

RESParser() - Constructor for class smile.data.parser.microarray.RESParser

Constructor.

response() - Method in class smile.data.Dataset

Returns the attribute of the response variable.

response() - Method in class smile.data.SparseDataset

Returns the attribute of the response variable.

S

set(int, int) - Method in class smile.data.SparseDataset

Set the class label of a datum.

set(int, double) - Method in class smile.data.SparseDataset

Set the real-valued response of a datum.

set(int, double, double) - Method in class smile.data.SparseDataset

Set the class label of real-valued response of a datum.

set(int, int, double) - Method in class smile.data.SparseDataset

Set a nonzero entry into the matrix.

setColumnNames(boolean) - Method in class smile.data.parser.DelimitedTextParser

Set if the dataset has column names (at row 0).

setCommentStartWith(String) - Method in class smile.data.parser.DelimitedTextParser

Set the character/string that starts a comment line.

setDelimiter(String) - Method in class smile.data.parser.DelimitedTextParser

Set the delimiter character/string.

setDescription(String) - Method in class smile.data.Dataset

Sets the detailed dataset description.

setDescription(String) - Method in class smile.data.SparseDataset

Sets the detailed dataset description.

setFormat(String) - Method in class smile.data.DateAttribute

Sets the date format.

setFormat(DateFormat) - Method in class smile.data.DateAttribute

Sets the date string formatter.

setMissingValuePlaceholder(String) - Method in class smile.data.parser.DelimitedTextParser

Set the missing value placeholder.

setName(String) - Method in class smile.data.Dataset

Sets the dataset name.

setName(String) - Method in class smile.data.SparseDataset

Sets the dataset name.

setOpen(boolean) - Method in class smile.data.NominalAttribute

Sets if the string values of the nominal attribute is a open set.

setOpen(boolean) - Method in class smile.data.StringAttribute

Sets if the string values of the nominal attribute is a open set.

setResponseIndex(int) - Method in class smile.data.parser.ArffParser

Sets the column index (starting at 0) of dependent/response variable.

setResponseIndex(Attribute, int) - Method in class smile.data.parser.DelimitedTextParser

Sets the attribute and column index (starting at 0) of dependent/response variable.

setRowNames(boolean) - Method in class smile.data.parser.DelimitedTextParser

Set if the dataset has row names (at column 0).

size() - Method in class smile.data.Dataset

Returns the size of dataset.

size() - Method in class smile.data.NominalAttribute

Returns the number of nominal values.

size() - Method in class smile.data.SparseDataset

Returns the size of dataset that is the number of rows.

smile.data - package smile.data

Data and attribute encapsulation classes.

smile.data.parser - package smile.data.parser

Parsers for various data formats.

smile.data.parser.microarray - package smile.data.parser.microarray

Parsers for microarray gene expression datasets.

SparseDataset - Class in smile.data

List of Lists sparse matrix format.

SparseDataset() - Constructor for class smile.data.SparseDataset

Constructor.

SparseDataset(String) - Constructor for class smile.data.SparseDataset

Constructor.

SparseDataset(Attribute) - Constructor for class smile.data.SparseDataset

Constructor.

SparseDataset(String, Attribute) - Constructor for class smile.data.SparseDataset

Constructor.

SparseDataset(int) - Constructor for class smile.data.SparseDataset

Constructor.

SparseDatasetParser - Class in smile.data.parser

Parser for spare dataset in coordinate triple tuple list format.

SparseDatasetParser() - Constructor for class smile.data.parser.SparseDatasetParser

Constructor.

SparseDatasetParser(int) - Constructor for class smile.data.parser.SparseDatasetParser

Constructor.

SparseMatrixParser - Class in smile.data.parser

Harwell-Boeing column-compressed sparse matrix file parser.

SparseMatrixParser() - Constructor for class smile.data.parser.SparseMatrixParser

Constructor.

StringAttribute - Class in smile.data

String attribute.

StringAttribute(String) - Constructor for class smile.data.StringAttribute

Constructor.

StringAttribute(String, double) - Constructor for class smile.data.StringAttribute

Constructor.

StringAttribute(String, String, double) - Constructor for class smile.data.StringAttribute

Constructor.

T

timestamp - Variable in class smile.data.Datum

Timestamp of datum in case of transactional data.

toArray(E[]) - Method in class smile.data.Dataset

Returns an array containing all of the elements in this dataset in proper sequence (from first to last element); the runtime type of the returned array is that of the specified array.

toArray(int[]) - Method in class smile.data.Dataset

Returns an array containing the class labels of the elements in this dataset in proper sequence (from first to last element).

toArray(double[]) - Method in class smile.data.Dataset

Returns an array containing the response variable of the elements in this dataset in proper sequence (from first to last element).

toArray(String[]) - Method in class smile.data.Dataset

Returns an array containing the string names of the elements in this dataset in proper sequence (from first to last element).

toArray(Timestamp[]) - Method in class smile.data.Dataset

Returns an array containing the timestamps of the elements in this dataset in proper sequence (from first to last element).

toArray() - Method in class smile.data.SparseDataset

Returns a dense two-dimensional array containing the whole matrix in this dataset in proper sequence.

toArray(SparseArray[]) - Method in class smile.data.SparseDataset

Returns an array containing all of the elements in this dataset in proper sequence (from first to last element); the runtime type of the returned array is that of the specified array.

toArray(int[]) - Method in class smile.data.SparseDataset

Returns an array containing the class labels of the elements in this dataset in proper sequence (from first to last element).

toArray(double[]) - Method in class smile.data.SparseDataset

Returns an array containing the response variable of the elements in this dataset in proper sequence (from first to last element).

toSparseMatrix() - Method in class smile.data.BinarySparseDataset

Convert into Harwell-Boeing column-compressed sparse matrix format.

toSparseMatrix() - Method in class smile.data.SparseDataset

Convert into Harwell-Boeing column-compressed sparse matrix format.

toString(double) - Method in class smile.data.Attribute

Returns the string representation of a double value of this attribute.

toString() - Method in class smile.data.Attribute

toString(Date) - Method in class smile.data.DateAttribute

Generate the date string.

toString(double) - Method in class smile.data.DateAttribute

toString(double) - Method in class smile.data.NominalAttribute

toString(double) - Method in class smile.data.NumericAttribute

toString(double) - Method in class smile.data.StringAttribute

TXTParser - Class in smile.data.parser.microarray

TXT gene expression file parser.

TXTParser() - Constructor for class smile.data.parser.microarray.TXTParser

Constructor.

type - Variable in class smile.data.Attribute

The type of attribute.

U

unitize() - Method in class smile.data.SparseDataset

Unitize each row so that L2 norm of x = 1.

unitize1() - Method in class smile.data.SparseDataset

Unitize each row so that L1 norm of x is 1.

V

valueOf(String) - Static method in enum smile.data.Attribute.Type

Returns the enum constant of this type with the specified name.

valueOf(String) - Method in class smile.data.Attribute

Returns the double value of a string of this attribute.

valueOf(Date) - Method in class smile.data.DateAttribute

Returns the double value representation of a data object.

valueOf(String) - Method in class smile.data.DateAttribute

valueOf(String) - Method in class smile.data.NominalAttribute

Returns the ordinal value of a string value.

valueOf(String) - Method in class smile.data.NumericAttribute

valueOf(String) - Method in class smile.data.StringAttribute

values() - Static method in enum smile.data.Attribute.Type

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Method in class smile.data.NominalAttribute

Returns the string values of nominal attribute.

values() - Method in class smile.data.StringAttribute

Returns the list of string values of this attribute.

W

weight - Variable in class smile.data.Attribute

Optional weight of this attribute.

weight - Variable in class smile.data.Datum

Optional weight of this datum.

X

x - Variable in class smile.data.Datum

Immutable datum object.

Y

y - Variable in class smile.data.Datum

Class label or real-valued response.

A B D E G H I L N P R S T U V W X Y