Getting the maximum common words in R - r

I have data of the form:
ID A1 A2 A3 ... A100
1 john max karl ... kevin
2 kevin bosy lary ... rosy
3 karl lary bosy ... hale
.
.
.
10000 isha john lewis ... dave
I want to get one ID for each ID such that both of them have maximum number of common attributes(A1,A2,..A100)
How can I do this in R ?
Edit: Let's call the output a MatchId:
ID MatchId
1 70
2 4000
.
.
10000 3000

I think this gets what you're looking for:
library(dplyr)
# make up some data
set.seed(1492)
rbind_all(lapply(1:15, function(i) {
x <- cbind.data.frame(stringsAsFactors=FALSE, i, t(sample(LETTERS, 10)))
colnames(x) <- c("ID", sprintf("A%d", 1:10))
x
})) -> dat
print(dat)
## Source: local data frame [15 x 11]
##
## ID A1 A2 A3 A4 A5 A6 A7 A8 A9 A10
## 1 1 H F E C B A R J Z N
## 2 2 Q P E M L Z C G V Y
## 3 3 Q J D N B T L K G Z
## 4 4 D Y U F V O I C A W
## 5 5 T Z D I J F R C B S
## 6 6 Q D H U P V O E R N
## 7 7 C L I M E K N S X Z
## 8 8 M J S E N O F Y X I
## 9 9 R H V N M T Q X L S
## 10 10 Q H L Y B W S M P X
## 11 11 M N J K B G S X V R
## 12 12 W X A H Y D N T Q I
## 13 13 K H V J D X Q W A U
## 14 14 M U F H S T W Z O N
## 15 15 G B U Y E L A Q W O
# get commons
rbind_all(lapply(1:15, function(i) {
rbind_all(lapply(setdiff(1:15, i), function(j) {
data.frame(id1=i,
id2=j,
common=length(intersect(c(t(dat[i, 2:11])),
c(t(dat[j, 2:11])))))
}))
})) -> commons
commons %>%
group_by(id1) %>%
top_n(1, common) %>%
filter(row_number()==1) %>%
select(ID=id1, MatchId=id2)
## Source: local data frame [15 x 2]
## Groups: ID
##
## ID MatchId
## 1 1 5
## 2 2 7
## 3 3 5
## 4 4 12
## 5 5 1
## 6 6 9
## 7 7 8
## 8 8 7
## 9 9 10
## 10 10 9
## 11 11 9
## 12 12 13
## 13 13 12
## 14 14 8
## 15 15 2

Using similar data as provided by #hrbrmstr
set.seed(1492)
dat <- do.call(rbind, lapply(1:15, function(i) {
x <- cbind.data.frame(stringsAsFactors=FALSE, i, t(sample(LETTERS, 10)))
colnames(x) <- c("ID", sprintf("A%d", 1:10))
x
}))
You could achieve the same using base R only
Res <- sapply(seq_len(nrow(dat)),
function(x) apply(dat[-1], 1,
function(y) length(intersect(dat[x, -1], y))))
diag(Res) <- -1
cbind(dat[1], MatchId = max.col(Res, ties.method = "first"))
# ID MatchId
# 1 1 5
# 2 2 7
# 3 3 5
# 4 4 12
# 5 5 1
# 6 6 9
# 7 7 8
# 8 8 7
# 9 9 10
# 10 10 9
# 11 11 9
# 12 12 13
# 13 13 12
# 14 14 8
# 15 15 2

If I understand correctly, the requirement is to obtain the maximum number of common attributes for each ID.
Frequency tables can be obtained using table() and recursively in lapply(), assuming that ID column is unique - slight modification is necessary if not (unique(df$ID) rather than df$ID in lapply()). The maximum frequencies can be taken and, if there is a tie, only the first one is chosen. Finally they are combined by do.call().
df <- read.table(header = T, text = "
ID A1 A2 A3 A100
1 john max karl kevin
2 kevin bosy lary rosy
3 karl lary bosy hale
10000 isha john lewis dave")
do.call(rbind, lapply(df$ID, function(x) {
tbl <- table(unlist(df[df$ID == x, 2:ncol(df)]))
data.frame(ID = x, MatchId = tbl[tbl == max(tbl)][1])
}))
# ID MatchId
#john 1 1
#kevin 2 1
#karl 3 1
#isha 10000 1

Related

List merging using names and varnames

I would like to perform a left_join between elements of two lists, conditional on the fact that the lista share the same name (I cannot use a simple left_joinon the databases for memory reasons).
set.seed(0)
db_m1 <- data.frame(
y=rep(1,20),
id=sort(rep(paste0("id_",c(letters[1:4])),5)),
m1=rep(c(100,200),10),
x1=sample(LETTERS, 20, TRUE),
x2=sample(LETTERS, 20, TRUE)) %>%
split(f=list(.$y,.$m1))
set.seed(0)
db_m2 <- data.frame(y=rep(1,20),
m1=sample(seq(100,500,100),20,TRUE),
m2=sample(c(6:10),20,TRUE)) %>%
split(f=list(.$y,.$m1))
Desiderata:
$`1.100`
y id m1 x1 x2 m2
1 1 id_a 100 N O 10
2 1 id_a 100 N O 7
(...)
$`1.200`
y id m1 x1 x2 m2
7 1 id_a 200 Y U 6
8 1 id_a 200 Y U 9
(...)
keys <- unique(c(names(candidates_0_s)))
setNames(lapply(keys, function(key){
result <- left_join(candidates_0_s[[key]],allies_0_s[[key]])
return(result)}
),keys)
same idea, but in base R and working with your example:
common <- intersect(names(db_m1), names(db_m2))
merge_items <- function(item) merge(db_m1[[item]], db_m2[[item]], all.x = TRUE)
res <- lapply(common, merge_items)
output:
> lapply(res, head)
[[1]]
y m1 id x1 x2 m2
1 1 100 id_a N O 10
2 1 100 id_a N O 7
3 1 100 id_a N O 7
4 1 100 id_a N O 9
5 1 100 id_a N O 9
6 1 100 id_a N O 6
[[2]]
y m1 id x1 x2 m2
1 1 200 id_a Y U 6
2 1 200 id_a Y U 9
3 1 200 id_a Y U 9
4 1 200 id_a Y U 7
5 1 200 id_a G I 6
6 1 200 id_a G I 9

Same column ( different row ) operations in R

I have a big database and I'm trying to create a new column starting from an existing one doing the difference between elements in consecutive cells ( same column, different row):
existing_column
new_column
A
A-B
B
B-C
C
C-D
D
D-E
...
...
Z
Z-NULL
The way I'm doing it is to duplicate existing column into a dummy one, remove first element, adding NULL as last element and subtracting the existing column and the dummy one ... is there a better way? Thank you
exist <-c("A","B","C","D","E")
db<-data.frame(exist)
dummy<-exist[-1]
dummy[length(dummy)+1]<-"NULL"
new_col<-paste(exist,"-",dummy)
new_col
db<-data.frame(exist,new_col)
db
Does this work:
library(dplyr)
df <- data.frame(existing_column = LETTERS)
df %>% mutate(new_column = paste(existing_column, lead(existing_column, default = 'NULL'), sep = '-'))
existing_column new_column
1 A A-B
2 B B-C
3 C C-D
4 D D-E
5 E E-F
6 F F-G
7 G G-H
8 H H-I
9 I I-J
10 J J-K
11 K K-L
12 L L-M
13 M M-N
14 N N-O
15 O O-P
16 P P-Q
17 Q Q-R
18 R R-S
19 S S-T
20 T T-U
21 U U-V
22 V V-W
23 W W-X
24 X X-Y
25 Y Y-Z
26 Z Z-NULL
Try the code below
transform(
df,
new_column = paste(existing_column, c(existing_column[-1], NA), sep = "-")
)
which gives
existing_column new_column
1 A A-B
2 B B-C
3 C C-D
4 D D-E
5 E E-F
6 F F-G
7 G G-H
8 H H-I
9 I I-J
10 J J-K
11 K K-L
12 L L-M
13 M M-N
14 N N-O
15 O O-P
16 P P-Q
17 Q Q-R
18 R R-S
19 S S-T
20 T T-U
21 U U-V
22 V V-W
23 W W-X
24 X X-Y
25 Y Y-Z
26 Z Z-NA
If you are working with numeric data just represented as characters in your example, you can use mutate() and lead()
df<-data.frame(old_col=sample(1:10))
df%>%mutate(new_col=old_col-lead(old_col, default = 0))
old_col new_col
1 10 4
2 6 -3
3 9 8
4 1 -1
5 2 -5
6 7 3
7 4 1
8 3 -5
9 8 3
10 5 5
In case there is a need of a fast data.table version
dt[, new_column:=paste(exist, shift(exist, type="lead"), sep="-")]
Edit. Turns it isn't much faster:
df = data.table(exist = rep(letters, 80000))
> m = microbenchmark::microbenchmark(
... a = df %>% mutate(new_column = paste(exist, lead(exist, default = 'NULL'), sep = '-')),
...
... b = transform(
... df,
... new_column = paste(exist, c(exist[-1], NA), sep = "-")
... ),
...
... d = df[, new_column := paste(exist, shift(exist, type="lead"), sep="-")]
... )
> m
Unit: milliseconds
expr min lq mean median uq max neval
a 292.2430 309.6150 342.0191 323.9778 361.0937 603.8449 100
b 349.4509 383.3391 475.0177 423.8864 472.0276 2136.2970 100
d 294.6786 302.8530 332.3989 315.6228 340.9642 641.8345 100

Post-processing of full_join output to remove multiplicity

I have two data frames(df1, df2) and performed full_join using the common column of interest col1.
df1 <- data.frame(col1=c('A','D','C','C','E','E','I'),col2=c(4,7,8,3,2,4,9))
df2 <- data.frame(col1=c('A','A','B','C','C','E','E','I'),col2=c(4,1,6,8,3,2,1,9))
df1 %>% full_join(df2, by = "col1")
# col1 col2.x col2.y
# 1 A 4 4
# 2 A 4 1
# 3 D 7 NA
# 4 C 8 8
# 5 C 8 3
# 6 C 3 8
# 7 C 3 3
# 8 E 2 2
# 9 E 2 1
# 10 E 4 2
# 11 E 4 1
# 12 I 9 9
# 13 B NA 6
As expected the full_join provides multiplicty of the joining column values and I wish to avoid it. I wish to arrive at the following output. What kind of post-processing approaches do you suggest?
# col1 col2.x col2.y
# 1 A 4 4
# 2 A NA 1
# 3 D 7 NA
# 4 C 8 8
# 5 C 3 3
# 6 E 2 2
# 7 E 4 1
# 8 I 9 9
# 9 B NA 6
More information:
Case 1: I do not need four rows in the output for two same values in both input objects:
# 4 C 8 8
# 5 C 8 3
# 6 C 3 8
# 7 C 3 3
instead, I want only two as:
# 4 C 8 8
# 5 C 3 3
Case 2: Similarly, I need same row for the difference in values:
# 8 E 2 2
# 9 E 2 1
# 10 E 4 2
# 11 E 4 1
instead, I want only two rows as below:
# 8 E 2 2
# 9 E 4 1
A possible solution in 2 steps using the data.table-package:
0) load package & convert to data.table's
library(data.table)
setDT(df1)
setDT(df2)
1) define helper function
unlistSD <- function(x) {
l <- length(x)
ls <- sapply(x, lengths)
m <- max(ls)
newSD <- vector(mode = "list", length = l)
for (i in 1:l) {
u <- unlist(x[[i]])
lu <- length(u)
if (lu < m) {
u <- c(u, rep(NA_real_, m - lu))
}
newSD[[i]] <- u
}
return(setNames(as.list(newSD), names(x)))
}
2) merge and apply helper function
merge(df1[, .(col2 = list(col2)), by = col1],
df2[, .(col2 = list(col2)), by = col1],
by = "col1", all = TRUE
)[, unlistSD(.SD), by = col1]
which gives the following result:
col1 col2.x col2.y
1: A 4 4
2: A NA 1
3: C 8 8
4: C 3 3
5: D 7 NA
6: E 2 2
7: E 4 1
8: I 9 9
9: B NA 6
Another possibiliy with base R:
unlistDF <- function(d, groupcols) {
ds <- split(d[, setdiff(names(d), groupcols)], d[,groupcols])
ls <- lapply(ds, function(x) max(sapply(x, lengths)))
dl <- lapply(ds, function(x) lapply(as.list(x), unlist))
du <- Map(function(x, y) {
lapply(x, function(i) {
if(length(i) < y) {
c(i, rep(NA_real_, y - length(i)))
} else i
})
}, x = dl, y = ls)
ld <- lapply(du, as.data.frame)
cbind(d[rep(1:nrow(d), ls), groupcols, drop = FALSE],
do.call(rbind.data.frame, c(ld, make.row.names = FALSE)),
row.names = NULL)
}
Now you can use this function as follows in combination with merge:
df <- merge(aggregate(col2 ~ col1, df1, as.list),
aggregate(col2 ~ col1, df2, as.list),
by = "col1", all = TRUE)
unlistDF(df, "col1")

Getting the length of a list

I am attempting to decipher a list res which has structure as per below:
How would I go about converting this to a 21 (row) by 2 (column) dataframe?
I can do it by manually hard-coding the 21:
data.frame(matrix(unlist(res), nrow=21 ))
However I would like to use length(res) which unfortunately returns 1
As it is a list use [[ to index it to get the matrix and then convert to dataframe.
data.frame(res[[1]])
Or use unlist with recursive = FALSE
data.frame(unlist(res[[1]], recursive = FALSE))
Using a reproducble example,
res <- list(matrix(letters,ncol = 2))
data.frame(res[[1]])
# X1 X2
#1 a n
#2 b o
#3 c p
#4 d q
#5 e r
#6 f s
#7 g t
#8 h u
#9 i v
#10 j w
#11 k x
#12 l y
#13 m z
You can also magrittr::extract2
res %>% magrittr::extract2(1)
## A tibble: 21 x 2
# V1 V2
# <chr> <chr>
# 1 O M
# 2 W S
# 3 C Q
# 4 L C
# 5 M K
# 6 R M
# 7 U Q
# 8 I T
# 9 K J
#10 H V
## … with 11 more rows
or use purrr::flatten_dfc
purrr::flatten_dfc(res)
## A tibble: 21 x 2
# V1 V2
# <chr> <chr>
# 1 O M
# 2 W S
# 3 C Q
# 4 L C
# 5 M K
# 6 R M
# 7 U Q
# 8 I T
# 9 K J
#10 H V
## … with 11 more rows
Sample data
set.seed(2018)
res <- list(
as_tibble(matrix(sample(LETTERS, 21 * 2, replace = T), nrow = 21, ncol = 2))
)

Replacing header in data frame based on values in second data frame

Say I have a data frame which looks like this:
df.A
A B C
x 1 3 4
y 5 4 6
z 8 9 1
And I want to replace the column names in the first based on column values in a second:
df.B
Low High
A D
B F
C G
Such that I get:
df.A
D F G
x 1 3 4
y 5 4 6
z 8 9 1
How would I do it?
I have tried extracting the vector df.B$High from df.B and using this in names(df.A), but everything is in alphabetical order and shifted over one. Furthermore, this only works if the order of columns in df.A is conserved with respect to the elements in df.B$High, which is not always the case (and in my real example there is no numeric or alphabetical way to sort the two to the same order). So I think I need an rbind-type argument for matching elements, but I'm not sure.
Thanks!
You can use rename from plyr:
library(plyr)
dat <- read.table(text = " A B C
x 1 3 4
y 5 4 6
z 8 9 1",header = TRUE,sep = "")
> new <- read.table(text = "Low High
A D
B F
C G",header = TRUE,sep = "")
> rename(dat,replace = setNames(new$High,new$Low))
D F G
x 1 3 4
y 5 4 6
z 8 9 1
using match:
df.A <- read.table(sep=" ", header=T, text="
A B C
x 1 3 4
y 5 4 6
z 8 9 1")
df.B <- read.table(sep=" ", header=T, text="
Low High
A D
B F
C G")
df.C <- df.A
names(df.C) <- df.B$High[match(names(df.A), df.B$Low)]
df.C
# D F G
# x 1 3 4
# y 5 4 6
# z 8 9 1
You can play games with the row names of df.B to make a lookup more convenient:
rownames(df.B) <- df.B$Low
names(df.A) <- df.B[names(df.A),"High"]
df.A
## D F G
## x 1 3 4
## y 5 4 6
## z 8 9 1
Here's an approach abusing factor:
f <- factor(names(df.A), levels=df.B$Low)
levels(f) <- df.B$High
f
## [1] D F G
## Levels: D F G
names(df.A) <- f
## Desired results

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