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radivot / SEERaBomb

This R package contains codes that setup SEER and A-bomb survivor data use with R.
GNU General Public License v2.0
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mkSEER ：'x' must be numeric #7

Closed leeningzzu closed 9 months ago

leeningzzu commented 4 years ago

when I run mkSEER(rdf) , it shows that：

mkSEER(rdf) Making population file data.tables Error in cut.default(race, labels = c("White", "Black", "Other"), breaks = c(1, : 'x' must be numeric 此外: Warning message: Unknown or uninitialised column: reg.

As download the data in ASCII format is no longer an option, I modified the pickFieldsfunction to analyse SEER_1975_2016_TEXTDATA without Radiation/Chemotherpy Databases.

If I just need SEER_1975_2016_TEXTDATA without Radiation/Chemotherpy Databases, is there any way to merge all the files?

Or could you share the Radiation/Chemotherpy Databases (1975-2016) in ASCII format? My access is granted , but after April 15, 2020, access only limited in SEER*Stat's Client-Server mode.

Thanks for your help.

radivot commented 4 years ago

Is this using the new release of SEER? If so, has the new release of the treatment data come out yet? SEERaBomb only works with the treatment dataset.

On Thu, Apr 16, 2020 at 10:29 PM leeningzzu notifications@github.com wrote:

when I run mkSEER(rdf) , it shows that：

mkSEER(rdf) Making population file data.tables Error in cut.default(race, labels = c("White", "Black", "Other"), breaks = c(1, : 'x' must be numeric 此外: Warning message: Unknown or uninitialised column: reg.

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leeningzzu commented 4 years ago

Yes, the 1975-2017 SEER Data was released on April 15, 2020, and the data can only be accessed through SEER*Stat in client-server mode.

radivot commented 4 years ago

As stated at the top of the readme here https://github.com/radivot/SEERaBomb (and pasted in below), I need the ASCII text version of the treatment data. Please let me know when that is available. I'll then need several days to make sure everything works with the new dataset.

WARNING: SEERaBomb does not work with SEER data that does not contain treatment information, i.e. you must obtain this extended dataset https://seer.cancer.gov/data/treatment.html by signing an additional SEER data use agreement.

To set up SEER data use in R, unzip the custom radiation and chemotherapy ASCII text version of the SEER data into ~/data/SEER where ~ is your home directory. On a Mac ~ is /Users/username, on linux it is /home/username, and in Windows ~ is /Users/username/Documents.

On Fri, Apr 17, 2020 at 3:56 AM leeningzzu notifications@github.com wrote:

Yes, the 1975-2017 SEER Data was released on April 15, 2020, and the data can only be accessed through SEER*Stat in client-server mode.

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leeningzzu commented 4 years ago

I'm sorry, the ASCII text version of the treatment data can't be downloaded, it can only be accessed through SEER*Stat in client-server mode,please see https://seer.cancer.gov/data/2020-data-changes.html for the changes with this data release. That's why I want to modify the pickFields function, I like using R to analyse data, it is a bad new.

radivot commented 4 years ago

I would just use the old data for a while and hope that maybe it will come out later

On Fri, Apr 17, 2020 at 10:18 AM leeningzzu notifications@github.com wrote:

I'm sorry, the ASCII text version of the treatment data can't be downloaded, it can only be accessed through SEER*Stat in client-server mode,please see https://seer.cancer.gov/data/2020-data-changes.html for the changes with this data release. That's why I want to modify the pickFields function, I like using R to analyse data, it is a bad new.

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/radivot/SEERaBomb/issues/7#issuecomment-615270310, or unsubscribe https://github.com/notifications/unsubscribe-auth/AAS6KT6UMLTJNTUX6ZFPOCLRNBQK3ANCNFSM4MKMN6XQ .

leeningzzu commented 4 years ago

So could you share the Radiation/Chemotherpy Databases (1975-2016) in ASCII format? My access is granted , but after April 15, 2020, access only limited in SEER*Stat's Client-Server mode. I like the SEERaBomb, but I only downloaded the incidence data.