When you start up R, one of the opening messages is:
'citation()' on how to cite R or R packages in publications.
Since it sounds like you're not using R yourself, here are the results for
R, but you'd have to go one by one through packages.
R Core Team (2020). R: A language and environment for
operating system and R 4.0.3).
You can download the last R GUI at this address:
https://mac.r-project.org/
The last version is now the 7905. It will probably work fine too.
*
On Mon, Jan 18, 2021 at 7:52 AM Patrick (Malone Quantitative)
wrote:
>
> The current version of Big Sur is
The current version of Big Sur is 11.1, with 11.2 in public beta. So
this may have been fixed. Maedeh, are you able to check?
On Sun, Jan 17, 2021 at 4:10 PM Maedeh Kamali wrote:
>
> Dear Gregory Coast,
>
> Thanks for your reply.
> I searched so much regarding how to fix this problem.
Looks like a misplaced right parenthesis. Try
contrast.outcome <-contrast(emmeans.outcome, method =
list("experimental_post1 - control_post1" = c(1, 0, -1, 0),
"experimental_post2 - control_post2" = c(0, 1, 0, -1)), adjust = "bonf")
Pat
On Sat, Jan 9, 2021 at 3:10 AM Laura Coco wrote:
>
>
Likely, yes. Your error message says k must be at least 1, so searching
below 1 is probably your issue.
Also, logically, zero nearest neighbors doesn't seem to make a lot of sense.
Pat
On Tue, Dec 29, 2020 at 11:01 AM Neha gupta
wrote:
> Thank you for your response.
>
> Are you certain that
76 Fax: 416.864.3016
>
>
> On 2020-12-15, 12:05 PM, "R-help on behalf of Patrick (Malone
> Quantitative)" mal...@malonequantitative.com> wrote:
>
> EXTERNAL EMAIL:
>
> Ok. If this is a desirable change, of whom would we request it? I was
>
Laboratoriemedicin, Östersunds sjukhus
>
> -Original Message-
> From: R-help On Behalf Of Patrick (Malone
> Quantitative)
> Sent: Tuesday, December 15, 2020 4:52 PM
> To: r-help
> Subject: [R] Meta: R-Help reply-to
>
> Greetings.
>
> Something I've wondered fo
Greetings.
Something I've wondered for some time--is mailman configurable to have
a default reply-to be set to the list or to reply-all?
Many newcomers who reply to individual R-Help participants may not
notice that they are doing so, and it seems a source of vexation to
some of the more
The error probably means what it says. I'm guessing "25 GB available"
is on the hard drive. But the issue is the data must be held in RAM,
and a file >4GB (before de-compression) is quite a lot of RAM on
laptop scales.
Try taking a subset of the data in Stata before importing?
Pat
On Mon, Nov
Thank you!
>
> > Op 2 nov. 2020, om 21:16 heeft Patrick (Malone Quantitative) <
> mal...@malonequantitative.com> het volgende geschreven:
> >
> > The error probably means what it says. I'm guessing "25 GB available"
> > is on the hard drive. But the is
Will this need to be done many times? If not, it might be just as easy
to apply conditional formatting to cells after they're already in
Excel.
On Fri, Oct 23, 2020 at 8:28 PM Dennis Fisher wrote:
>
> R 4.0.2
> OS X
>
> Colleagues
>
> I have the unfortunate need to create a large number of
(Neglected to cc the list--please reply-all to this version)
What was the warning?
I hazard a guess you've run into precision issues for binary
representation, and the result of your division is not *exactly* 101.
Pat
On Thu, Oct 22, 2020 at 2:42 PM 奈良県奈良市 wrote:
>
> Dear R project team
>
> I
Maria Cristina,
The MatchIt homepage at https://gking.harvard.edu/matchit has a link
to a mailing list specific to the package and it has searchable
archives. You will probably have better luck there than a general R
programming list. Though a quick perusal of the user guide at that
site makes me
Try it and see?
On Sat, Aug 22, 2020 at 11:44 AM Firpo, Mike via R-help <
r-help@r-project.org> wrote:
> Hello,
>
> Reading the FAQ, I'm confused about whether R 4.0.2 is tested on Windows
> 7. I found the following:
>
> > 2.24 Does R run under Windows Vista/7/8/Server 2008?
> >
> > It does.
Gunter
>
> "The trouble with having an open mind is that people keep coming along and
> sticking things into it."
> -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
>
>
> On Sat, Aug 1, 2020 at 11:15 AM Patrick (Malone Quantitative) <
>
No, R does not. glm() does in order to do logistic regression.
On Sat, Aug 1, 2020 at 2:11 PM Paul Bernal wrote:
> Hi Bert,
>
> Thank you for the kind reply.
>
> But what if I don't turn the variable into a factor. Let's say that in
> excel I just coded the variable as 1s and 0s and just
Oh, right--I puzzled out my mistake.
On Sat, Jul 25, 2020 at 4:17 PM Jeff Newmiller
wrote:
> False. Mutate is similar in structure to the base function `within`. Which
> is why you have to assign the altered data frame back onto itself.
>
> On July 25, 2020 12:59:06 PM PDT, &quo
Jeff,
mutate(), which is I think part of dplyr, also violates this, for what it's
worth. I suspect the breaking point is that mutate() is intended to create
new columns in the dataframe, not alter existing ones.
On Sat, Jul 25, 2020 at 3:52 PM Jeff Newmiller
wrote:
> R is largely a functional
This seems needlessly complicated.
df$v1 <- as.double(df$v1)
Or as.numeric()
On Sat, Jul 25, 2020 at 3:31 PM H wrote:
> In a statement like:
>
> df %>% mutate(v1 = as.double(v1))
>
> I expect the variable v1 in dataframe df to have been converted into a
> double. However, when I do:
>
>
There's only one version and it's free.
On Sat, Jul 11, 2020 at 1:46 PM Sachin Patil
wrote:
>
> Dear R Software Team,
>
>
>
> We want to know about R software Licensing to procure it. Do you have R
> software License version or any professional version?
>
>
>
> Regards,
>
> Sachin Patil
>
> IT
It looks like it's looking for column names in the first row of your Excel
sheet and not finding them. What does the first row contain?
On Tue, Jun 23, 2020 at 10:57 AM Ahson via R-help
wrote:
> I have imported data from an Excel file and I am getting errors:
>
> > library(readxl)
> >
Thanks, Rich! I found several books to peruse.
On Fri, May 22, 2020 at 12:29 PM Richard M. Heiberger
wrote:
> Springer has just made available free access to many books through July.
> This is part of their global program to support educators, students
> and academics
> affected by coronavirus
This isn't an R code question and you posted in HTML, but briefly:
Simulate data that could arise from your study, including missing and
outliers, then write code that runs th analyses. Put the code in an
open-science archive.
Then run it as is when you actually have the data.
There will
Guessing for Ana, but no, that's a different meaning. Beta/StdErr is a
z statistic--a test statistic against (usually) the tails of the unit
normal distribution. So like a t-test with infinite df.
On Wed, May 6, 2020 at 10:41 AM Rui Barradas wrote:
>
> Hello,
>
> By z-scores do you mean
"I tried this but I am not sure if this is correct:"
Does it provide the expected result for all possible combinations of 1/2/NA
for both variables?
On Mon, May 4, 2020 at 1:16 PM Ana Marija
wrote:
> Hello,
>
> I have a data frame like this:
>
> > head(b)
>FID IID FLASER PLASER
> 1:
If you don't mind using tidyverse, you can do this easily with if_else.
b$PHENO<-if_else(...
On Wed, Apr 29, 2020 at 3:21 PM Ana Marija
wrote:
> Hello,
>
> I have a data frame like this:
>
> > head(b)
>FID IID FLASER PLASER
> 1: fam1000 G1000 1 1
> 2: fam1001 G1001
A package on github called yamlpack appears to do a lot of the work
involved. I can't vouch for it personally.
https://github.com/combiz/yamlpack
On Sun, Apr 26, 2020 at 1:12 PM Sarah Goslee wrote:
> Not so coincidentally, I just worked thru this for myself.
>
> I did want to rebuild and
Also, is the default base for "log" the same in both programs?
On Tue, Apr 14, 2020 at 3:36 PM Sorkin, John wrote:
>
> Your question is unlikely to be answered unless you post code demonstrating
> the problem
> J
>
> John David Sorkin M.D., Ph.D.
> Professor of Medicine
> Chief, Biostatistics
Also, note that the p-values will probably not exactly correspond to
conclusions drawn from the bootstrapped confidence limits. They are
two different approaches to the research question. Broadly speaking,
the bootstrapped limits avoid the assumption of a symmetric sampling
distribution that
You didn't provide a reproducible example for testing (or post in
plain text), but lubridate has an as.interval() function. You'll need
to be able to extract the start time, though, for use in the function.
On Tue, Dec 24, 2019 at 11:54 AM Allaisone 1 wrote:
>
>
> Hi dear group ,
>
> I have list
What does the error message say?
On Mon, Dec 23, 2019, 3:33 PM Steinmann, Kimberly@CDPR <
kimberly.steinm...@cdpr.ca.gov> wrote:
> Hi - i am not super familiar with R, but need to modify my predecessor's R
> code so that if a variable is >0 and < 0.5, it will be replaced with <1. I
> have looked
Per the posting guide, post your script and use plain text. There's no
way anyone can possibly help with only this information.
On Fri, Dec 20, 2019 at 5:33 PM Neha gupta wrote:
>
> When I run my code, I get the following error and suddenly the execution
> of the script stops. Where in my data
Try putting / instead of - in your format, to match the data.
On Tue, Dec 17, 2019 at 5:52 PM Val wrote:
>
> Hi All,
>
> I wanted to to convert character date mm/dd/yy to -mm-dd
> The sample data and my attempt is shown below
>
> gs <-read.table(text="ID date
> A1 09/27/03
> A2
I agree with Abby. That would defeat the purpose of a QQ plot.
On Mon, Nov 11, 2019, 9:54 PM Abby Spurdle wrote:
> Hi
>
> I'm not familiar with the qqman package, or GWAS studies.
> However, my guess would be that you're *not* supposed to change the
> position of the line.
>
> On Tue, Nov 12,
This isn't an R language question, but there are many tutorials,
blogs, and videos on the web that address this sort of thing, in
addition to StackExchange.
On Mon, Nov 4, 2019 at 11:58 AM Neha gupta wrote:
>
> Hello to all. I am new to R language, just read few tutorials.
>
> I have a question,
, "b"))
> [1] c b a c b a
>
> See also ?reorder for a useful way of reordering the levels,
> especially in plots.
>
> -Deepayan
>
> > Cheers,
> > Bert
> >
> > Bert Gunter
> >
> > "The trouble with having an open mind is that peop
Try using relevel() to organize the categories in your factor in the
desired order. You may need to use relevel(as.factor()) .
On Sat, Oct 26, 2019 at 6:51 AM April Ettington
wrote:
>
> Hi,
>
> When I use ggpubr with an x-axis utilizing descriptive categories (eg. bar
> chart for different
For what it's worth, this is an ongoing conversation in computer
science and engineering. And has been so for decades.
Not R, but related to this it's only in the past few months that a
fork of the photo-manipulation software GIMP (slur for handicapped)
renames it (GLIMPSE).
Note, I am not
(And post in plain text)
On Tue, Sep 3, 2019 at 10:34 AM Bert Gunter wrote:
>
> You should post this on the R-sig-mixed-models list, not here. When you do
> so, use ?dput to include data, not cut and paste.
>
> Cheers,
> Bert
>
>
> On Tue, Sep 3, 2019 at 6:10 AM Ades, James wrote:
>
> >
> > I
Perhaps rather than re-inventing the wheel, some current open science
repository(ies) would work, just with an encouragement to use subject
tagging to indicate the software.
Pat
On Thu, Aug 29, 2019 at 9:38 AM Eric Berger wrote:
>
> Rich writes: " I've been out of academia for a very long time
This should get you going:
Add a vector of 1s to controls before joining the datasets.
On Tue, Aug 6, 2019 at 3:01 PM Ana Marija wrote:
>
> I really don't know how I would implement this
>
> On Tue, Aug 6, 2019 at 1:42 PM Patrick (Malone Quantitative)
> wrote:
>>
>
Can you please tell em what means to post in "plain text" ?
>
> Thanks
> Ana
>
> On Tue, Aug 6, 2019 at 1:33 PM Patrick (Malone Quantitative)
> wrote:
>>
>> Do you have some kind of ID variable? If so, it should be
>> straightforward with the approp
Do you have some kind of ID variable? If so, it should be
straightforward with the appropriate joining function.
What have you tried?
Also, please post in plain text.
On Tue, Aug 6, 2019 at 2:16 PM Ana Marija wrote:
>
> Hello,
>
> I am filtering my data frame "tot" via:
>
> controls=tot %>%
Poorly phrased--makes it act differently with respect to set.seed() .
On Tue, Jul 30, 2019 at 6:55 PM Patrick (Malone Quantitative)
wrote:
>
> My understanding is that sample() in 3.6.0 did, in fact, change in
> ways that detach it from set.seed().
>
> You can use RNGkind(
My understanding is that sample() in 3.6.0 did, in fact, change in
ways that detach it from set.seed().
You can use RNGkind() or RNGversion() to recapture the old behavior.
See https://cran.rstudio.com/bin/windows/base/NEWS.R-3.6.1.html in the
section CHANGES IN R 3.6.0 .
Also, please do not
Again, consult an IP lawyer whom you are paying for legal advice.
On Tue, Jul 23, 2019 at 4:15 PM Duncan Murdoch wrote:
>
> On 23/07/2019 2:38 p.m., ANAMIKA KUMARI wrote:
> > Hi Team
> >
> > Thank you for your reply. I do not intend to use hard work of community and
> > earn profit on it. I do
You're in the wrong place. This is for help with R programming.
But you shouldn't be asking us either way, as we (at least most of us)
aren't lawyers. Get your attorney to study the GNU-GPL-2.0 and tell
you what you need to and can do for your purposes.
Pat
On Mon, Jul 22, 2019 at 1:23 PM
But it's also a convenience feature. Note that $E returned null
because there was an ambiguity. By the time you got to $Ex the column
you were referencing was unambiguous and you didn't have to type out
the whole thing. Useful if you have very long column names, for
example imported from a
What happens if you use key=year?
Also, tables get mangled when you post in HTML to plain-text list.
On Mon, Jul 15, 2019 at 6:47 PM wrote:
>
> r-help
>
>
>
> Needing to transform some data for a time series (1930 - 2018).
>
>
>
> > tempDat
> # A tibble: 89 x 13
> Year Jan Feb Mar
Please re-send as plain text. The HTML version is unreadable.
On Sat, Jul 13, 2019 at 12:25 PM shetumi--- via R-help
wrote:
>
> I tried to update R in my Windows machine from 3.4.2 to latest one. But it is
> showing error as follows. Can anyone please help me where the problem is ?
> >
ll the same error:
>> > library(ukbtools)
>> > my_ukb_data <- ukb_df("ukb31212")
>> > ukb_icd_diagnosis(my_ukb_data, id = "117", icd.version = 10)
>> Error: Column 1 must be named.
>> Use .name_repair to specify repair.
>> Call `rlan
On Wed, Jul 10, 2019 at 4:52 PM David Winsemius wrote:
>
> Did you read the bug report from three weeks ago and the suggested fix
> documented on the webpage you cited?
>
> —
> David
>
>
> Sent from my iPhone
>
> > On Jul 10, 2019, at 1:09 PM, Patri
> Error in ukb_icd_diagnosis(my_ukb_data, eid = "117", icd.version = 10)
> :
> unused argument (eid = "117")
>
>
>
> On Wed, Jul 10, 2019 at 3:09 PM Patrick (Malone Quantitative) <
> mal...@malonequantitative.com> wrote:
>
>> First respon
First response: The ID column in your data is labeled "eid" but your
function call refers to "id".
On Wed, Jul 10, 2019 at 1:38 PM Ana Marija wrote:
>
> Hello,
>
> I am trying to use this program:
> https://github.com/kenhanscombe/ukbtools
>
> > my_ukb_data[1:3,1:3]
> eid sex_f31_0_0
Spencer, what prints into your console is not the point. As others have
said, the best way to find it if an R object is the type matrix is
is.matrix() . That will return TRUE or FALSE.
[[alternative HTML version deleted]]
__
I suspect Massimo meant to refer to the output z as "critical ratio,"
vs. "critical value." But I agree with Massimo there's no
interpretation of it with an exact test. The p-value is the meaningful
output.
Pat
On Fri, Jun 7, 2019 at 5:40 AM Duncan Murdoch wrote:
>
> On 07/06/2019 3:08 a.m.,
We've had this conversation.
A) This is off-topic for R-Help. Your question is about the statistical test,
not about the R coding.
B) A difference in sample statistics, whether or not it "looks" large, is not
sufficient for statistical significance.
On 3/19/19, 12:48 PM, "R-help on behalf of
First, I'm pretty sure this is a statistics question, not an R question.
But you're asserting there is a difference in the data. The statistical test is
telling you that this apparent difference is within the range of chance
variation. There's not a contradiction there, unless you mean there is
Point 1 confirmed. It's an exhaustive permutation test.
On 2/11/19, 8:46 PM, "R-help on behalf of Bert Gunter"
wrote:
1. I believe Fisher's exact test is computationally intensive and takes a
lot of time for large structures, so I would say what you see is what you
should expect!
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