From 09b907d09f57072ecdf537b51bf26859a568664f Mon Sep 17 00:00:00 2001 From: jinwooyoon Date: Thu, 19 Oct 2023 09:21:21 +0900 Subject: [PATCH 1/2] 'update' --- README.md | 11 ++++++++--- docs/Approach.html | 9 ++++----- docs/background.html | 4 ++-- docs/index.html | 3 ++- docs/site_libs/header-attrs-2.24/header-attrs.js | 12 ++++++++++++ rmd/Approach.Rmd | 15 ++++----------- rmd/background.Rmd | 6 +++--- rmd/index.Rmd | 2 +- 8 files changed, 36 insertions(+), 26 deletions(-) create mode 100644 docs/site_libs/header-attrs-2.24/header-attrs.js diff --git a/README.md b/README.md index e8bd6c7..03a8ab6 100644 --- a/README.md +++ b/README.md @@ -1,4 +1,9 @@ -# ImageWG -Repository for medical image working group +# Medical Imaging Working Group -test \ No newline at end of file +The Medical Imaging Working Group (MI WG) for the OHDSI community was formed in 2021, comprised of imaging research scientists and observational health researchers familiar with OMOP CDM. The working group evaluated standard vocabularies, defined fields containing key imaging events, and identified limitations of OMOP CDM for imaging observational research. + +The working group started with the R-CDM in the development of the medical imaging extension. Imaging researchers across the field were consulted to gather requirements and gain insights into the structure and usability of the proposed model. The principal clinical use case focused on longitudinal tracking of multiple lung nodules. Important attributes included CT acquisition parameters, nodule diameter, location, density, shape, and other phenotypes. + +A prototype using CT lung nodules was developed and demonstrated at the 2023 Society of Imaging Informatics in Medicine (SIIM) conference Hackathon. + +Please check our [Page](https://ohdsi.github.io/ImageWG/index.html) for more information. diff --git a/docs/Approach.html b/docs/Approach.html index dd48b1a..b63954a 100644 --- a/docs/Approach.html +++ b/docs/Approach.html @@ -13,7 +13,7 @@ Medical Imaging Extension Model - + @@ -372,16 +372,15 @@

Medical


+
+

Representation

The medical imaging extension proposal represents imaging characteristics through two new tables—Image_occurrence and Image_features.

-


+src="https://github.com/OHDSI/ImageWG/assets/84831718/9401804f-e6c8-4964-9a66-12fb7e0cd071" />


-
-

Representation

Schema

diff --git a/docs/background.html b/docs/background.html index 5a1b9c9..8836894 100644 --- a/docs/background.html +++ b/docs/background.html @@ -13,7 +13,7 @@ Background - + @@ -288,6 +288,7 @@

Background +


The Medical Imaging Working Group (MI WG) for the OHDSI community was formed in 2021, comprised of imaging research scientists and observational health researchers familiar with OMOP CDM. The working @@ -302,7 +303,6 @@

Background -



diff --git a/docs/index.html b/docs/index.html index 819c691..2bfd088 100644 --- a/docs/index.html +++ b/docs/index.html @@ -13,7 +13,7 @@ OHDSI Medical Image WG - + @@ -371,6 +371,7 @@

+


Mission

The OHDSI Medical Imaging Working Group aims to represent medical diff --git a/docs/site_libs/header-attrs-2.24/header-attrs.js b/docs/site_libs/header-attrs-2.24/header-attrs.js new file mode 100644 index 0000000..dd57d92 --- /dev/null +++ b/docs/site_libs/header-attrs-2.24/header-attrs.js @@ -0,0 +1,12 @@ +// Pandoc 2.9 adds attributes on both header and div. We remove the former (to +// be compatible with the behavior of Pandoc < 2.8). +document.addEventListener('DOMContentLoaded', function(e) { + var hs = document.querySelectorAll("div.section[class*='level'] > :first-child"); + var i, h, a; + for (i = 0; i < hs.length; i++) { + h = hs[i]; + if (!/^h[1-6]$/i.test(h.tagName)) continue; // it should be a header h1-h6 + a = h.attributes; + while (a.length > 0) h.removeAttribute(a[0].name); + } +}); diff --git a/rmd/Approach.Rmd b/rmd/Approach.Rmd index 3024797..5a97da9 100644 --- a/rmd/Approach.Rmd +++ b/rmd/Approach.Rmd @@ -10,25 +10,18 @@ output:
-The medical imaging extension proposal represents imaging characteristics through two new tables—Image_occurrence and Image_features. -![](https://github.com/jinwooyoon/edi_test/assets/84831718/8be9ce62-9f1b-408f-9af8-687237fd20d1) - -
- +## **Representation** +The medical imaging extension proposal represents imaging characteristics through two new tables—Image_occurrence and Image_features. +![](https://github.com/jinwooyoon/edi_test/assets/84831718/8be9ce62-9f1b-408f-9af8-687237fd20d1) -![](https://github.com/jinwooyoon/edi_test/assets/84831718/e9df1b32-e57a-4bc0-ba6f-74afde55bdf9) +![](https://github.com/OHDSI/ImageWG/assets/84831718/9401804f-e6c8-4964-9a66-12fb7e0cd071)
-## **Representation** - - - - ## **Schema** ### Image_occurrence diff --git a/rmd/background.Rmd b/rmd/background.Rmd index 2ead823..01b03d1 100644 --- a/rmd/background.Rmd +++ b/rmd/background.Rmd @@ -2,10 +2,10 @@ title: '

Background
' output: html_document --- -The Medical Imaging Working Group (MI WG) for the OHDSI community was formed in 2021, comprised of imaging research scientists and observational health researchers familiar with OMOP CDM. The working group evaluated standard vocabularies, defined fields containing key imaging events, and identified limitations of the model. The working group started with the R-CDM in the development of the medical imaging extension. Imaging researchers across the field were consulted to gather requirements and gain insights into the structure and usability of the proposed model. The principal clinical use case focused on longitudinal tracking of multiple lung nodules. Important attributes included CT acquisition parameters, nodule diameter, location, density, shape, and other phenotypes. A prototype using CT lung nodules was developed and demonstrated at the 2023 Society of Imaging Informatics in Medicine (SIIM) conference Hackathon. -
-
+ +The Medical Imaging Working Group (MI WG) for the OHDSI community was formed in 2021, comprised of imaging research scientists and observational health researchers familiar with OMOP CDM. The working group evaluated standard vocabularies, defined fields containing key imaging events, and identified limitations of the model. The working group started with the R-CDM in the development of the medical imaging extension. Imaging researchers across the field were consulted to gather requirements and gain insights into the structure and usability of the proposed model. The principal clinical use case focused on longitudinal tracking of multiple lung nodules. Important attributes included CT acquisition parameters, nodule diameter, location, density, shape, and other phenotypes. A prototype using CT lung nodules was developed and demonstrated at the 2023 Society of Imaging Informatics in Medicine (SIIM) conference Hackathon. + diff --git a/rmd/index.Rmd b/rmd/index.Rmd index eb98383..ec53e3b 100644 --- a/rmd/index.Rmd +++ b/rmd/index.Rmd @@ -8,7 +8,7 @@ output: collapsed: false --- - +
## **Mission** From 857f5a0eb239c47405cddb9a1c66576f66d6e278 Mon Sep 17 00:00:00 2001 From: jinwooyoon Date: Thu, 19 Oct 2023 00:29:38 +0000 Subject: [PATCH 2/2] Apply automatic changes --- docs/Approach.html | 2 +- docs/background.html | 2 +- docs/index.html | 2 +- docs/site_libs/header-attrs-2.24/header-attrs.js | 12 ------------ 4 files changed, 3 insertions(+), 15 deletions(-) delete mode 100644 docs/site_libs/header-attrs-2.24/header-attrs.js diff --git a/docs/Approach.html b/docs/Approach.html index b63954a..0efb4db 100644 --- a/docs/Approach.html +++ b/docs/Approach.html @@ -13,7 +13,7 @@ Medical Imaging Extension Model - + diff --git a/docs/background.html b/docs/background.html index 8836894..0a82085 100644 --- a/docs/background.html +++ b/docs/background.html @@ -13,7 +13,7 @@ Background - + diff --git a/docs/index.html b/docs/index.html index 2bfd088..46628c2 100644 --- a/docs/index.html +++ b/docs/index.html @@ -13,7 +13,7 @@ OHDSI Medical Image WG - + diff --git a/docs/site_libs/header-attrs-2.24/header-attrs.js b/docs/site_libs/header-attrs-2.24/header-attrs.js deleted file mode 100644 index dd57d92..0000000 --- a/docs/site_libs/header-attrs-2.24/header-attrs.js +++ /dev/null @@ -1,12 +0,0 @@ -// Pandoc 2.9 adds attributes on both header and div. We remove the former (to -// be compatible with the behavior of Pandoc < 2.8). -document.addEventListener('DOMContentLoaded', function(e) { - var hs = document.querySelectorAll("div.section[class*='level'] > :first-child"); - var i, h, a; - for (i = 0; i < hs.length; i++) { - h = hs[i]; - if (!/^h[1-6]$/i.test(h.tagName)) continue; // it should be a header h1-h6 - a = h.attributes; - while (a.length > 0) h.removeAttribute(a[0].name); - } -});