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Correlation distance #35

Closed
ericbair-sciome opened this issue Nov 14, 2023 · 2 comments
Closed

Correlation distance #35

ericbair-sciome opened this issue Nov 14, 2023 · 2 comments
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enhancement New feature or request version ? Uncertain when this feature will be implemented

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@ericbair-sciome
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Check and potentially implement a correlation-based distance. The distance metric may be better for calculating neighbors across space, time, and outcomes. Use the correlation distance outlined in MJ & Katzfuss. They have simple code that should be portable and require little changes to the current code.
@ericbair-sciome ericbair-sciome added enhancement New feature or request version ? Uncertain when this feature will be implemented labels Nov 14, 2023
@ericbair-sciome
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I think @brian-bk22 told me that he has done this and found that it was much slower and didn't meaningfully change the results. So I don't think it is a super high priority to get this into the package. I know @brian-bk22 is slammed with a couple other projects right now, but I decided to go ahead and put this on the issue tracker so we don't forget about it. One of us will work on adding this when we have some extra time.

sciome-bot pushed a commit that referenced this issue Feb 8, 2024
@shail-choksi
Pull request #37: Added documentation. Added RandomFields data sets. …
076c0a1 
…Fixed R CMD issues

Merge in STAT/prestogp from master to to-git

Squashed commit of the following:

commit 7e330f3
Merge: 13a6f44 f49d076
Author: sciome-bot <software.tools@sciome.com>
Date:   Wed Feb 7 23:25:05 2024 -0500

    Merge branch 'master' of ssh://sciome-bot/stat/prestogp

commit f49d076
Merge: 439790c 59baf72
Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Feb 7 23:19:54 2024 -0500

    Pull request #35: Eb dev

    Merge in STAT/prestogp from eb-dev to master

    * commit '59baf720737abe59a04c98705c950ef1c7b63321':
      Fixed some documentation issues
      Removed C++11 compiler flag
      Added RandomFields data sets to PrestoGP
      Added knitr to Suggests in DESCRIPTION
      Documentation, R-cmd-check fixes, binomial regression

commit 59baf72
Author: Eric Bair <eric.bair@sciome.com>
Date:   Tue Feb 6 17:49:48 2024 -0500

    Fixed some documentation issues

commit d857d8b
Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Feb 1 02:16:44 2024 -0500

    Removed C++11 compiler flag

commit 662907d
Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Jan 31 15:36:37 2024 -0500

    Added RandomFields data sets to PrestoGP

commit cf2aadb
Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Jan 31 13:40:24 2024 -0500

    Added knitr to Suggests in DESCRIPTION

commit ef5f2c9
Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Jan 31 01:31:53 2024 -0500

    Documentation, R-cmd-check fixes, binomial regression

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Merge: 439790c 8ffb20b
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Date:   Sun Jan 14 11:46:17 2024 -0500

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commit 439790c
Merge: f4af0d1 56f881f
Author: Eric Bair <eric.bair@sciome.com>
Date:   Sun Jan 14 10:58:49 2024 -0500

    Pull request #32: Fixed some testthat issues

    Merge in STAT/prestogp from eb-dev to master

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Sat Jan 13 14:05:12 2024 -0500

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Date:   Sat Jan 13 12:37:28 2024 -0500

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Sat Jan 13 12:11:56 2024 -0500

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    Merge in STAT/prestogp from eb-dev to master

    * commit '7da2588abba4491c1ff490de95e834d00f5df88e':
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commit 7da2588
Author: Eric Bair <eric.bair@sciome.com>
Date:   Sat Jan 13 01:37:58 2024 -0500

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commit 55607e2
Merge: c7ed481 81b675d
Author: Shail Choksi <shail.choksi@sciome.com>
Date:   Fri Jan 12 19:37:55 2024 -0500

    Pull request #28: Final linting fixes

    Merge in STAT/prestogp from build-workflow to master

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Date:   Fri Jan 12 19:23:11 2024 -0500

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Merge: 723c3eb 7bcfa1a
Author: Shail Choksi <shail.choksi@sciome.com>
Date:   Fri Jan 12 19:02:59 2024 -0500

    Pull request #27: Lintr fixes. Added release and sanitizer actions

    Merge in STAT/prestogp from build-workflow to master

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      Add R_LINTR_LINTER_FILE to lint action to point to global .lintr file
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      WIP: Fix linter warnings for 1:nrow, 1:ncol and 1:length. Increase line length to 160 chars
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      Add missing comma in imports section of DESCRIPTION
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Date:   Fri Jan 12 18:16:01 2024 -0500

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Date:   Fri Jan 12 17:54:50 2024 -0500

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... and 21 more commits
sciome-bot added a commit that referenced this issue Feb 8, 2024
@sciome-bot
Pull request #39: Removed test vignette, fixed lint issues
95fef8c 
Merge in STAT/prestogp from master to to-git

Squashed commit of the following:

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Merge: 55c0e8e 5394772
Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Feb 8 14:19:24 2024 -0500

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Feb 7 23:19:54 2024 -0500

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    Merge in STAT/prestogp from eb-dev to master

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Date:   Sun Jan 14 10:58:49 2024 -0500

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    Merge in STAT/prestogp from eb-dev to master

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Sat Jan 13 14:05:12 2024 -0500

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Date:   Sat Jan 13 12:37:28 2024 -0500

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Date:   Fri Jan 12 19:23:11 2024 -0500

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... and 25 more commits
sciome-bot pushed a commit that referenced this issue Apr 5, 2024
@shail-choksi
Implement imputation beta
05e7dfb 
Squashed commit of the following:

commit cae8439
Merge: c15c519 6bafe5c
Author: Eric Bair <eric.bair@sciome.com>
Date:   Fri Apr 5 16:38:34 2024 -0400

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Apr 4 00:17:45 2024 -0400

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Date:   Wed Feb 7 23:19:54 2024 -0500

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    Merge in STAT/prestogp from eb-dev to master

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Tue Feb 6 17:49:48 2024 -0500

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Date:   Wed Jan 31 01:31:53 2024 -0500

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... and 30 more commits
sciome-bot pushed a commit that referenced this issue Apr 9, 2024
@shail-choksi
Pull request #43: Fix documentation issue blocking R CMD check and re…
6c79863 
…vert execute permission on all files

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Date:   Wed Jan 31 15:36:37 2024 -0500

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Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Jan 31 13:40:24 2024 -0500

    Added knitr to Suggests in DESCRIPTION

... and 35 more commits
sciome-bot pushed a commit that referenced this issue Apr 25, 2024
@shail-choksi
Remove dependency on sysreqs to fix sanitizer action
d1dd01b 
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Author: sciome-bot <software.tools@sciome.com>
Date:   Wed Apr 10 09:51:12 2024 -0400

    Merge branch 'main-sciome' of sciome-bot-git:NIEHS/PrestoGP

commit 00171d7
Merge: cb9236b e0c9039
Author: Shail Choksi <shail.choksi@sciome.com>
Date:   Tue Apr 9 17:17:39 2024 -0400

    Pull request #44: Revert execute permissions on all files

    Merge in STAT/prestogp from shail-dev-2 to master

    * commit 'e0c90391f290dd2f6ebe62f6a69db8ec006c1872':
      chmod changes
      Implement imputation beta

commit e0c9039
Merge: b8f91fd 05e7dfb
Author: sciome-bot <software.tools@sciome.com>
Date:   Tue Apr 9 17:16:29 2024 -0400

    Merge branch 'to-git' of ssh://sciome-bot/stat/prestogp into shail-dev-2

commit b8f91fd
Author: sciome-bot <software.tools@sciome.com>
Date:   Tue Apr 9 17:10:53 2024 -0400

    chmod changes

commit cb9236b
Merge: cae8439 218a18a
Author: Eric Bair <eric.bair@sciome.com>
Date:   Tue Apr 9 17:03:10 2024 -0400

    Pull request #42: Fixed a documentation issue

    Merge in STAT/prestogp from eb-dev to master

    * commit '218a18a6cd2891c7c4975e408f7308243c11abbf':
      Fixed a documentation issue

commit 218a18a
Author: Eric Bair <eric.bair@sciome.com>
Date:   Mon Apr 8 02:18:24 2024 -0400

    Fixed a documentation issue

commit cae8439
Merge: c15c519 6bafe5c
Author: Eric Bair <eric.bair@sciome.com>
Date:   Fri Apr 5 16:38:34 2024 -0400

    Pull request #40: Imputation beta

    Merge in STAT/prestogp from eb-dev to master

    * commit '6bafe5cf9d5574074bdcb0288e4b48efb87a8840':
      Imputation beta implemented
      Updated version number

commit 6bafe5c
Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Apr 4 00:17:45 2024 -0400

    Imputation beta implemented

commit 1f4bcc7
Author: Eric Bair <eric.bair@sciome.com>
Date:   Sun Mar 17 16:36:13 2024 -0400

    Updated version number

commit c15c519
Merge: 350b236 bab8357
Author: sciome-bot <software.tools@sciome.com>
Date:   Thu Feb 8 14:25:12 2024 -0500

    Merge branch 'master' of ssh://sciome-bot/stat/prestogp

commit 350b236
Merge: 55c0e8e 95fef8c
Author: sciome-bot <software.tools@sciome.com>
Date:   Thu Feb 8 14:24:34 2024 -0500

    Merge branch 'main-sciome' of sciome-bot-git:Spatiotemporal-Exposures-and-Toxicology/PrestoGP

commit bab8357
Merge: 55c0e8e 5394772
Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Feb 8 14:19:24 2024 -0500

    Pull request #38: Removed vignette, fixed lint issues

    Merge in STAT/prestogp from eb-dev to master

    * commit '53947729624b47fa1920ef39bd23d86f6e5cd7b7':
      Removed vignette, fixed lint issues

commit 55c0e8e
Merge: 7e330f3 076c0a1
Author: sciome-bot <software.tools@sciome.com>
Date:   Thu Feb 8 14:18:48 2024 -0500

    Merge branch 'main-sciome' of sciome-bot-git:Spatiotemporal-Exposures-and-Toxicology/PrestoGP

commit 5394772
Merge: b431df4 7e330f3
Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Feb 8 14:07:54 2024 -0500

    Resolved merge conflict

commit b431df4
Author: Eric Bair <eric.bair@sciome.com>
Date:   Thu Feb 8 13:56:38 2024 -0500

    Removed vignette, fixed lint issues

commit 7e330f3
Merge: 13a6f44 f49d076
Author: sciome-bot <software.tools@sciome.com>
Date:   Wed Feb 7 23:25:05 2024 -0500

    Merge branch 'master' of ssh://sciome-bot/stat/prestogp

commit f49d076
Merge: 439790c 59baf72
Author: Eric Bair <eric.bair@sciome.com>
Date:   Wed Feb 7 23:19:54 2024 -0500

    Pull request #35: Eb dev

    Merge in STAT/prestogp from eb-dev to master

    * commit '59baf720737abe59a04c98705c950ef1c7b63321':
      Fixed some documentation issues
      Removed C++11 compiler flag
      Added RandomFields data sets to PrestoGP
      Added knitr to Suggests in DESCRIPTION
      Documentation, R-cmd-check fixes, binomial regression

... and 37 more commits
@kyle-messier
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@ericbair-sciome @brian-bk22 We've gone other directions, so I'm closing this for now

sciome-bot pushed a commit that referenced this issue Dec 29, 2024
@ericbair-sciome @shail-choksi
Pull request #35: Eb dev
f49d076 
Merge in STAT/prestogp from eb-dev to master

* commit '59baf720737abe59a04c98705c950ef1c7b63321':
  Fixed some documentation issues
  Removed C++11 compiler flag
  Added RandomFields data sets to PrestoGP
  Added knitr to Suggests in DESCRIPTION
  Documentation, R-cmd-check fixes, binomial regression
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@kyle-messier @ericbair-sciome