help with sqldf

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help with sqldf

Yuan Chun Ding
Hi R Users,

I tried to use sql in R;  test1 works well,
library(sqldf)
test1 <- sqldf("select * from r where V1 like '%GCCATGTCAGCACACTACC%TGAAACCTTTAACTATTT%'")
test2 <- sqldf("select * from r where V1 like markerinfo$flank1[1] ")

but I want to store the search content in a markerinfo file as shown below
> markerinfo$flank1[1]
[1] "%GCCATGTCAGCACACTACC%TGAAACCTTTAACTATTT%"

However, test2 does not work well.
How to make test2 work?
Thank you,

Ding


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Re: help with sqldf

Sarah Goslee
WIthout knowing anything about your research domain, take a look at
what your sql looks like:

"select * from r where V1 like markerinfo$flank1[1] "

You are asking to match literally "markerinfo$flank1[1]" and not the R
object referred to.

Try something more like,

paste("select * from r where V1 like", markerinfo$flank1[1])

Sarah



On Sun, Jun 28, 2020 at 4:35 PM Yuan Chun Ding <[hidden email]> wrote:

>
> Hi R Users,
>
> I tried to use sql in R;  test1 works well,
> library(sqldf)
> test1 <- sqldf("select * from r where V1 like '%GCCATGTCAGCACACTACC%TGAAACCTTTAACTATTT%'")
> test2 <- sqldf("select * from r where V1 like markerinfo$flank1[1] ")
>
> but I want to store the search content in a markerinfo file as shown below
> > markerinfo$flank1[1]
> [1] "%GCCATGTCAGCACACTACC%TGAAACCTTTAACTATTT%"
>
> However, test2 does not work well.
> How to make test2 work?
> Thank you,
>
> Ding
>
>
> ----------------------------------------------------------------------

--
Sarah Goslee (she/her)
http://www.numberwright.com

______________________________________________
[hidden email] mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
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Re: help with sqldf

Yuan Chun Ding
Thank you,  Sarah, I modified your suggestion a little and it works.

Ding

-----Original Message-----
From: Sarah Goslee [mailto:[hidden email]]
Sent: Sunday, June 28, 2020 2:01 PM
To: Yuan Chun Ding
Cc: [hidden email]
Subject: Re: [R] help with sqldf

[Attention: This email came from an external source. Do not open attachments or click on links from unknown senders or unexpected emails.]

----------------------------------------------------------------------
WIthout knowing anything about your research domain, take a look at what your sql looks like:

"select * from r where V1 like markerinfo$flank1[1] "

You are asking to match literally "markerinfo$flank1[1]" and not the R object referred to.

Try something more like,

paste("select * from r where V1 like", markerinfo$flank1[1])

Sarah



On Sun, Jun 28, 2020 at 4:35 PM Yuan Chun Ding <[hidden email]> wrote:

>
> Hi R Users,
>
> I tried to use sql in R;  test1 works well,
> library(sqldf)
> test1 <- sqldf("select * from r where V1 like
> '%GCCATGTCAGCACACTACC%TGAAACCTTTAACTATTT%'")
> test2 <- sqldf("select * from r where V1 like markerinfo$flank1[1] ")
>
> but I want to store the search content in a markerinfo file as shown
> below
> > markerinfo$flank1[1]
> [1] "%GCCATGTCAGCACACTACC%TGAAACCTTTAACTATTT%"
>
> However, test2 does not work well.
> How to make test2 work?
> Thank you,
>
> Ding
>
>
> ----------------------------------------------------------------------

--
Sarah Goslee (she/her)
https://urldefense.com/v3/__http://www.numberwright.com__;!!Fou38LsQmgU!9SCiZIQ_zHuDAXWGYxM7lRBCYFNjyeIBBixmHgks3DT_1F48jN5kSuPQ5c2T$ 

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------------------------------------------------------------
-SECURITY/CONFIDENTIALITY WARNING-  

This message and any attachments are intended solely for the individual or entity to which they are addressed. This communication may contain information that is privileged, confidential, or exempt from disclosure under applicable law (e.g., personal health information, research data, financial information). Because this e-mail has been sent without encryption, individuals other than the intended recipient may be able to view the information, forward it to others or tamper with the information without the knowledge or consent of the sender. If you are not the intended recipient, or the employee or person responsible for delivering the message to the intended recipient, any dissemination, distribution or copying of the communication is strictly prohibited. If you received the communication in error, please notify the sender immediately by replying to this message and deleting the message and any accompanying files from your system. If, due to the security risks, you do not wish to rec
 eive further communications via e-mail, please reply to this message and inform the sender that you do not wish to receive further e-mail from the sender. (LCP301)
------------------------------------------------------------
______________________________________________
[hidden email] mailing list -- To UNSUBSCRIBE and more, see
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
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