Skip to content

Commit 27609fb

Browse files
chaselgrovechaselgrove
authored
Merge branch 'master' into enh-spaces
2 parents 4778034 + 5596b90 commit 27609fb

28 files changed

+440
-281
lines changed

‎.codespellrc

+6
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,6 @@
1+
# Ref: https://github.com/codespell-project/codespell#using-a-config-file
2+
[codespell]
3+
skip = .git,*.pdf,*.svg,go.sum,*.css,*.min.*,.codespellrc
4+
check-hidden = true
5+
ignore-regex = \b(TE|currentY|Lew|fnndsc.childrens.harvard.edu)\b
6+
# ignore-words-list =

‎.github/workflows/codespell.yml

+23
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,23 @@
1+
# Codespell configuration is within .codespellrc
2+
---
3+
name: Codespell
4+
5+
on:
6+
push:
7+
branches: [master]
8+
pull_request:
9+
branches: [master]
10+
11+
permissions:
12+
contents: read
13+
14+
jobs:
15+
codespell:
16+
name: Check for spelling errors
17+
runs-on: ubuntu-latest
18+
19+
steps:
20+
- name: Checkout
21+
uses: actions/checkout@v3
22+
- name: Codespell
23+
uses: codespell-project/actions-codespell@v2

‎2019_training_logistics.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎5Steps/acquisition.html

+7-7
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">
@@ -82,7 +82,7 @@ <h1 class="main-page-header"><b>Data Acquisition Considerations</b> for More Rep
8282
<li>Use <a href="http://reproin.repronim.org">ReproIn</a> to automate conversion of your imaging data to <a href="http://bids.neuroimaging.io">BIDS</a>.
8383
<li>Annotate your metadata (all experimental details) as you collect it.
8484
<ul>
85-
<li>There are a number of ways to annotate your data. The idea with annotations are to provide unambigous markup of your data, whether it be imaging, behavioral, clinical, etc. One strategy is to annotate the variables you intend to collect during the study design process. This can occur by choosing data structures that are publically available and already annotated (e.g. <a href="https://ndar.nih.gov/data_dictionary.html">NDAR</a>) or by using the tools below. Regardless of the approach, the important aspect is to unambigously describe what the variables collected mean, their ranges, min/max, units, etc. For more information on the desired properties for annotations, see: <a href="https://docs.google.com/spreadsheets/d/1PKoO9wqxJy92Je1doX_a42Ey2PzFOqGTxQgSpHtu7D4/edit#gid=632728597">Federated Data Elements</a>
85+
<li>There are a number of ways to annotate your data. The idea with annotations are to provide unambiguous markup of your data, whether it be imaging, behavioral, clinical, etc. One strategy is to annotate the variables you intend to collect during the study design process. This can occur by choosing data structures that are publicly available and already annotated (e.g. <a href="https://ndar.nih.gov/data_dictionary.html">NDAR</a>) or by using the tools below. Regardless of the approach, the important aspect is to unambiguously describe what the variables collected mean, their ranges, min/max, units, etc. For more information on the desired properties for annotations, see: <a href="https://docs.google.com/spreadsheets/d/1PKoO9wqxJy92Je1doX_a42Ey2PzFOqGTxQgSpHtu7D4/edit#gid=632728597">Federated Data Elements</a>
8686
<ul>
8787
<li> <a href="http://brainverse.repronim.org">BrainVerse</a> is a tool being developed which can help to annotate your variables by directly incorporating data structures from NDAR.
8888
<li> <a href="https://github.com/incf-nidash/PyNIDM">PyNIDM</a> is both a Python library for creating metadata documents using the Neuroimaging Data Model (<a href="http://nidm.nidash.org/">NIDM</a>) but also contains tools such as "bidsmri2nidm" and "csv2nidm" which can be used to interactively annotate both BIDS datasets (via participants.csv file) and general CSV-formatted data files containinga header row of variables which require annotation. The annotation process requires you to have a <a href="https://scicrunch.org/">SciCrunch</a> account and API-access key which are freely available on the site. The tools iteratve over your variables and query the InterLex information resource looking for terms that match your variables. If no term is found you are asked to contribute a new term definition which will be used in the InterLex and thus provide persistent annotations.

‎5Steps/design.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎5Steps/processing.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎5Steps/publication.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎5Steps/stats.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎5steps.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎about_us.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎collaborators.html

+1-2
Original file line numberDiff line numberDiff line change
@@ -8,5 +8,4 @@
88
<body>
99
<p>If you are not redirected, <a href="community.html#collaborating-projects">click here</a>.</p>
1010
</body>
11-
</html>
12-
11+
</html>

‎community.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎describe.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎discover.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎do.html

+8-8
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">
@@ -92,7 +92,7 @@ <h3 class="main-sub-header">What are you waiting for?<br> Just <strong>Do</stron
9292
</ul>
9393
<p>
9494
We strongly believe in the benefits of modular design,
95-
collaboration, and re-use. That is why, instead of developing a
95+
collaboration, and reuse. That is why, instead of developing a
9696
single monolithic platform to "solve all the problems", we are
9797
reusing and contributing to existing projects as much as possible.
9898
To that end, in the scope of this project, we actively maintain
@@ -195,7 +195,7 @@ <h3><a href="https://github.com/myyoda">YODA</a> Principles</h3>
195195
cover the entire life-span of a research project with reliable,
196196
non-ambiguous tracking and orchestration of all digital products of
197197
a study (e.g., inputs, code, outputs). Modularization facilitates
198-
the independent re-use of parts (e.g., the same data used across
198+
the independent reuse of parts (e.g., the same data used across
199199
multiple studies, versions of a software library used repeatedly) in
200200
a manner that scales to dataset sizes found in cutting edge
201201
high-resolution neuroimaging research.</p>

‎eab.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎events.html

+6-6
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">

‎fellows-resources.html

+9-10
Original file line numberDiff line numberDiff line change
@@ -2,13 +2,13 @@
22
<html lang="en">
33
<head>
44

5-
<!-- Global site tag (gtag.js) - Google Analytics -->
6-
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-132556733-1"></script>
5+
<!-- Google tag (gtag.js) -->
6+
<script async src="https://www.googletagmanager.com/gtag/js?id=G-WJRL86VLXW"></script>
77
<script>
8-
window.dataLayer = window.dataLayer || [];
9-
function gtag(){dataLayer.push(arguments);}
10-
gtag('js', new Date());
11-
gtag('config', 'UA-132556733-1');
8+
window.dataLayer = window.dataLayer || [];
9+
function gtag(){dataLayer.push(arguments);}
10+
gtag('js', new Date());
11+
gtag('config', 'G-WJRL86VLXW');
1212
</script>
1313

1414
<meta charset="utf-8">
@@ -97,20 +97,19 @@ <h3 class="main-sub-header">Resources developed by fellows.</h3>
9797
</dl>
9898
</div>
9999
<div class="col-sm-6 resource">
100-
101100
<dl>
102101
<dt>Title</dt>
103-
<dd>Brain Image Processing</dd>
102+
<dd>Southampton Brain Image Processing Workshops</dd>
104103
<dt>Type</dt>
105104
<dd>Workshop</dd>
106105
<dt>Description</dt>
107106
<dd></dd>
108107
<dt>Audience</dt>
109-
<dd></dd>
108+
<dd>academics and clinicians developing image processing and data analysis methods for neurological disorders</dd>
110109
<dt>Keywords</dt>
111110
<dd></dd>
112111
<dt>Links</dt>
113-
<dd></dd>
112+
<dd><a href="https://sotnir.github.io/svg" target="_blank">https://sotnir.github.io/svg</a><br></dd>
114113
<dt>Fellow</dt>
115114
<dd>Yukai Zou</dd>
116115
</dl>

0 commit comments

Comments
 (0)