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New landing page organization.  Small typos in recommendations.
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ericearl committed Jul 27, 2020
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37 changes: 22 additions & 15 deletions docs/index.md
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# Important Updates
# Releases

## Release 1.1.0

Released 7/27/2020, this is the next big release with the addition of:

1. `participants.(json|tsv)`: BIDS standard participants files with matched groups
1. `sourcedata.func.task_events`: Task-based fMRI E-Prime files
1. `inputs.dwi.dwi`: DWI BIDS input data
1. `derivatives.anat.stats`: FreeSurfer stats files
1. `derivatives.anat.(T1w|T2w)`: T1 and T2 volumes
1. `derivatives.anat.wmparc`: white-matter volume ROIs
1. `derivatives.func.updated_motion_task-(MID|nback|SST|rest)`: Improved motion files (including outlier calculation)
1. `derivatives.func.pconns`: Curated parcellated connectivity files
1. `derivatives.func.runs_task-(MID|nback|SST|rest)_volume`: Minimally-processed fMRI volumes

## Release 1.0.0

- 7/24/2020: Today marks another momentous release for the ABCD-BIDS Community Collection 3165 on the NDA. The NDA has finished their quality assurance checks and the following inputs and derivatives are now available for download using [the nda-abcd-s3-downloader](https://github.com/ABCD-STUDY/nda-abcd-s3-downloader):
1. `sourcedata.func.task_events`: Task-based fMRI E-Prime files
1. `inputs.dwi.dwi`: DWI BIDS input data
1. `derivatives.anat.stats`: FreeSurfer stats files
1. `derivatives.anat.(T1w|T2w)`: T1 and T2 volumes
1. `derivatives.anat.wmparc`: white-matter volume ROIs
1. `derivatives.func.updated_motion_task-(MID|nback|SST|rest)`: Improved motion files (including outlier calculation)
1. `derivatives.func.pconns`: Curated parcellated connectivity files
1. `derivatives.func.runs_task-(MID|nback|SST|rest)_volume`: Minimally-processed fMRI volumes
- 4/20/2020: We have uploaded diffusion weighted imaging (DWI) input data including DWI field maps for 5,635 subject's baseline MRI sessions. We are working with the NDA to get this data released publicly prior to 5/15/2020.
- 4/14/2020: We have uploaded raw fMRI task event files to the NDA for sessions among the 9,647 with task-based fMRI data. We are working with the NDA to get this data released publicly prior to 5/15/2020.
- 2/17/2020: The NDA confirmed for us last week that the uploaded data is all released. This brings our subject counts to **10,038 MRI sessions worth of NDA imagingcollection01 data** and **9,647 MRI sessions worth of NDA fmriresults01 data**.

## Table of Contents
Released 2/17/2020, this is the initial release of DCAN Labs ABCD-BIDS inputs and derivatives containing **10,038 MRI sessions worth of NDA imagingcollection01 data** and **9,647 MRI sessions worth of NDA fmriresults01 data**.

## Updates from the Curators

- 7/27/2020: Today marks another momentous release for the ABCD-BIDS Community Collection 3165 on the NDA. The NDA has finished their quality assurance checks and the Release 1.1.0 inputs and derivatives are now available for download using [the nda-abcd-s3-downloader](https://github.com/ABCD-STUDY/nda-abcd-s3-downloader).

## Documentation Guide

Clicking any link within the readthedocs site will not open a new web browser tab. If you want to keep your docs open, either middle-click or right-click and choose open in new tab for the links you would like to follow.

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4 changes: 2 additions & 2 deletions docs/recommendations.md
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Expand Up @@ -32,11 +32,11 @@ In a BIDS standard folder layout there should always be a `participants.tsv` (sp
1. `income`: Combined income
1. `participant_education`: Participant grade in school
1. `parental_education`: Highest level of parental education
1. `anesthesia_exposure`: History of participant anesthesia expeosure
1. `anesthesia_exposure`: History of participant anesthesia exposure

They are available for download on [the main NDA Collection 3165 page](https://nda.nih.gov/edit_collection.html?id=3165).

The `matched_group` field is the product of comparisons across site, age, sex, ethnicity, grade, highest level of parental education, handedness, combined family income, exposure to anesthesia, and family-relatedness which show no significant differences between the ABCD-1 and ABCD-2 groups. Comparison of the counts and means for each of these factors shows that ABCD-1 and ABCD-2 are negligibly different samples. Gender shows the largest absolute difference of 2.5 percent. No other demographic variables differ by more than 1 percent. See below table:
The `matched_group` field is the product of comparisons across site, age, sex, ethnicity, grade, highest level of parental education, handedness, combined family income, exposure to anesthesia, and family-relatedness which show no significant differences between the ABCD-1 and ABCD-2 groups. Comparison of the counts and means for each of these factors shows that ABCD-1 and ABCD-2 are negligibly different samples. Gender shows the largest absolute difference of 2.5 percent. No other demographic variables differ by more than 1 percent. See table above.

## 3. Downloading and Unpacking Data

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