[ 1/13] index.qmd
[ 2/13] intro.qmd
[ 3/13] intro-population-science.qmd
[ 4/13] geodemographics.qmd
processing file: geodemographics.qmd
output file: geodemographics.knit.md
processing file: geodemographics.qmd
output file: geodemographics.knit.md
[ 5/13] sequence-analysis.qmd
processing file: sequence-analysis.qmd
|... | 6% (unnamed-chunk-2) System has not been booted with systemd as init system (PID 1). Can't operate.
Failed to connect to bus: Host is down
output file: sequence-analysis.knit.md
processing file: sequence-analysis.qmd
|... | 6% (unnamed-chunk-2) System has not been booted with systemd as init system (PID 1). Can't operate.
Failed to connect to bus: Host is down
output file: sequence-analysis.knit.md
[ 6/13] network.qmd
processing file: network.qmd
|................ | 32% (unnamed-chunk-16)as_data_frame package:igraph R Documentation
Creating igraph graphs from data frames or vice-versa
Description:
This function creates an igraph graph from one or two data frames
containing the (symbolic) edge list and edge/vertex attributes.
Usage:
as_data_frame(x, what = c("edges", "vertices", "both"))
graph_from_data_frame(d, directed = TRUE, vertices = NULL)
from_data_frame(...)
Arguments:
x: An igraph object.
what: Character constant, whether to return info about vertices,
edges, or both. The default is 'edges'.
d: A data frame containing a symbolic edge list in the first two
columns. Additional columns are considered as edge
attributes. Since version 0.7 this argument is coerced to a
data frame with 'as.data.frame'.
directed: Logical scalar, whether or not to create a directed graph.
vertices: A data frame with vertex metadata, or 'NULL'. See details
below. Since version 0.7 this argument is coerced to a data
frame with 'as.data.frame', if not 'NULL'.
...: Passed to 'graph_from_data_frame()'.
Details:
'graph_from_data_frame()' creates igraph graphs from one or two
data frames. It has two modes of operation, depending whether the
'vertices' argument is 'NULL' or not.
If 'vertices' is 'NULL', then the first two columns of 'd' are
used as a symbolic edge list and additional columns as edge
attributes. The names of the attributes are taken from the names
of the columns.
If 'vertices' is not 'NULL', then it must be a data frame giving
vertex metadata. The first column of 'vertices' is assumed to
contain symbolic vertex names, this will be added to the graphs as
the ''name'' vertex attribute. Other columns will be added as
additional vertex attributes. If 'vertices' is not 'NULL' then the
symbolic edge list given in 'd' is checked to contain only vertex
names listed in 'vertices'.
Typically, the data frames are exported from some spreadsheet
software like Excel and are imported into R via 'read.table()',
'read.delim()' or 'read.csv()'.
All edges in the data frame are included in the graph, which may
include multiple parallel edges and loops.
'as_data_frame()' converts the igraph graph into one or more data
frames, depending on the 'what' argument.
If the 'what' argument is 'edges' (the default), then the edges of
the graph and also the edge attributes are returned. The edges
will be in the first two columns, named 'from' and 'to'. (This
also denotes edge direction for directed graphs.) For named
graphs, the vertex names will be included in these columns, for
other graphs, the numeric vertex ids. The edge attributes will be
in the other columns. It is not a good idea to have an edge
attribute named 'from' or 'to', because then the column named in
the data frame will not be unique. The edges are listed in the
order of their numeric ids.
If the 'what' argument is 'vertices', then vertex attributes are
returned. Vertices are listed in the order of their numeric vertex
ids.
If the 'what' argument is 'both', then both vertex and edge data
is returned, in a list with named entries 'vertices' and 'edges'.
Value:
An igraph graph object for 'graph_from_data_frame()', and either a
data frame or a list of two data frames named 'edges' and
'vertices' for 'as.data.frame'.
Note:
For 'graph_from_data_frame()' 'NA' elements in the first two
columns 'd' are replaced by the string "NA" before creating the
graph. This means that all 'NA's will correspond to a single
vertex.
'NA' elements in the first column of 'vertices' are also replaced
by the string "NA", but the rest of 'vertices' is not touched. In
other words, vertex names (=the first column) cannot be 'NA', but
other vertex attributes can.
Author(s):
Gabor Csardi <mailto:csardi.gabor@gmail.com>
See Also:
'graph_from_literal()' for another way to create graphs,
'read.table()' to read in tables from files.
Other conversion: 'as.directed()', 'as.matrix.igraph()',
'as_adj_list()', 'as_adjacency_matrix()', 'as_edgelist()',
'as_graphnel()', 'as_incidence_matrix()', 'as_long_data_frame()',
'graph_from_adj_list()', 'graph_from_graphnel()'
Examples:
## A simple example with a couple of actors
## The typical case is that these tables are read in from files....
actors <- data.frame(
name = c(
"Alice", "Bob", "Cecil", "David",
"Esmeralda"
),
age = c(48, 33, 45, 34, 21),
gender = c("F", "M", "F", "M", "F")
)
relations <- data.frame(
from = c(
"Bob", "Cecil", "Cecil", "David",
"David", "Esmeralda"
),
to = c("Alice", "Bob", "Alice", "Alice", "Bob", "Alice"),
same.dept = c(FALSE, FALSE, TRUE, FALSE, FALSE, TRUE),
friendship = c(4, 5, 5, 2, 1, 1), advice = c(4, 5, 5, 4, 2, 3)
)
g <- graph_from_data_frame(relations, directed = TRUE, vertices = actors)
print(g, e = TRUE, v = TRUE)
## The opposite operation
as_data_frame(g, what = "vertices")
as_data_frame(g, what = "edges")
output file: network.knit.md
processing file: network.qmd
|................ | 32% (unnamed-chunk-16)as_data_frame package:igraph R Documentation
Creating igraph graphs from data frames or vice-versa
Description:
This function creates an igraph graph from one or two data frames
containing the (symbolic) edge list and edge/vertex attributes.
Usage:
as_data_frame(x, what = c("edges", "vertices", "both"))
graph_from_data_frame(d, directed = TRUE, vertices = NULL)
from_data_frame(...)
Arguments:
x: An igraph object.
what: Character constant, whether to return info about vertices,
edges, or both. The default is 'edges'.
d: A data frame containing a symbolic edge list in the first two
columns. Additional columns are considered as edge
attributes. Since version 0.7 this argument is coerced to a
data frame with 'as.data.frame'.
directed: Logical scalar, whether or not to create a directed graph.
vertices: A data frame with vertex metadata, or 'NULL'. See details
below. Since version 0.7 this argument is coerced to a data
frame with 'as.data.frame', if not 'NULL'.
...: Passed to 'graph_from_data_frame()'.
Details:
'graph_from_data_frame()' creates igraph graphs from one or two
data frames. It has two modes of operation, depending whether the
'vertices' argument is 'NULL' or not.
If 'vertices' is 'NULL', then the first two columns of 'd' are
used as a symbolic edge list and additional columns as edge
attributes. The names of the attributes are taken from the names
of the columns.
If 'vertices' is not 'NULL', then it must be a data frame giving
vertex metadata. The first column of 'vertices' is assumed to
contain symbolic vertex names, this will be added to the graphs as
the ''name'' vertex attribute. Other columns will be added as
additional vertex attributes. If 'vertices' is not 'NULL' then the
symbolic edge list given in 'd' is checked to contain only vertex
names listed in 'vertices'.
Typically, the data frames are exported from some spreadsheet
software like Excel and are imported into R via 'read.table()',
'read.delim()' or 'read.csv()'.
All edges in the data frame are included in the graph, which may
include multiple parallel edges and loops.
'as_data_frame()' converts the igraph graph into one or more data
frames, depending on the 'what' argument.
If the 'what' argument is 'edges' (the default), then the edges of
the graph and also the edge attributes are returned. The edges
will be in the first two columns, named 'from' and 'to'. (This
also denotes edge direction for directed graphs.) For named
graphs, the vertex names will be included in these columns, for
other graphs, the numeric vertex ids. The edge attributes will be
in the other columns. It is not a good idea to have an edge
attribute named 'from' or 'to', because then the column named in
the data frame will not be unique. The edges are listed in the
order of their numeric ids.
If the 'what' argument is 'vertices', then vertex attributes are
returned. Vertices are listed in the order of their numeric vertex
ids.
If the 'what' argument is 'both', then both vertex and edge data
is returned, in a list with named entries 'vertices' and 'edges'.
Value:
An igraph graph object for 'graph_from_data_frame()', and either a
data frame or a list of two data frames named 'edges' and
'vertices' for 'as.data.frame'.
Note:
For 'graph_from_data_frame()' 'NA' elements in the first two
columns 'd' are replaced by the string "NA" before creating the
graph. This means that all 'NA's will correspond to a single
vertex.
'NA' elements in the first column of 'vertices' are also replaced
by the string "NA", but the rest of 'vertices' is not touched. In
other words, vertex names (=the first column) cannot be 'NA', but
other vertex attributes can.
Author(s):
Gabor Csardi <mailto:csardi.gabor@gmail.com>
See Also:
'graph_from_literal()' for another way to create graphs,
'read.table()' to read in tables from files.
Other conversion: 'as.directed()', 'as.matrix.igraph()',
'as_adj_list()', 'as_adjacency_matrix()', 'as_edgelist()',
'as_graphnel()', 'as_incidence_matrix()', 'as_long_data_frame()',
'graph_from_adj_list()', 'graph_from_graphnel()'
Examples:
## A simple example with a couple of actors
## The typical case is that these tables are read in from files....
actors <- data.frame(
name = c(
"Alice", "Bob", "Cecil", "David",
"Esmeralda"
),
age = c(48, 33, 45, 34, 21),
gender = c("F", "M", "F", "M", "F")
)
relations <- data.frame(
from = c(
"Bob", "Cecil", "Cecil", "David",
"David", "Esmeralda"
),
to = c("Alice", "Bob", "Alice", "Alice", "Bob", "Alice"),
same.dept = c(FALSE, FALSE, TRUE, FALSE, FALSE, TRUE),
friendship = c(4, 5, 5, 2, 1, 1), advice = c(4, 5, 5, 4, 2, 3)
)
g <- graph_from_data_frame(relations, directed = TRUE, vertices = actors)
print(g, e = TRUE, v = TRUE)
## The opposite operation
as_data_frame(g, what = "vertices")
as_data_frame(g, what = "edges")
output file: network.knit.md
[ 7/13] sentiment-analysis.qmd
processing file: sentiment-analysis.qmd
|... | 6% (unnamed-chunk-2) System has not been booted with systemd as init system (PID 1). Can't operate.
Failed to connect to bus: Host is down
|........................... | 54% (unnamed-chunk-19)Quitting from lines 291-292 (sentiment-analysis.qmd)
Error: The textdata package is required to download the NRC word-emotion association lexicon.
Install the textdata package to access this dataset.
Execution halted