get everyone on the team into Confluence and into this Space
Set goals
Plan next steps toward achieving goals
Discussion items
Time
Item
Who
Notes
5min
infrastructure:
hardware
software
Name
import from <places> into Posda then into NBIA
There is a hangup between SECTRA to Posda-to-ARIES
Cancerimagingarchive.net has a landing page (Wordpress, Confluence, NBIA-for-search-and-download)
MongoDB to manage nonDICOM data?
What processes <are, should be> built?
JSON IS DECIDED as the right standard format to feed MongoDB
Potentially, in addition, CSV for tabular data (Posda understands DICOM, JSON, CSV)
how to handle embedded formulae in excel multitabular data for example will be a Posda feature
Annotation based on this type of file format?
Potential descriptions from the PI for each column on a form
What does search mean - which data elements are Posda cleaning versus which pieces are Posda Harmonizing
Deale neuropsych ontology; Poldrack ontology?
Collection 1: Gait and PD
Tuhin
Linkage between ARIES ID and Virmani lab ID is established via secure server site
Some of the data were not in SECTRA and don't have MRN (stored by name) but there exists a mapping table to ARIESID for all (we think)
This lab has loaded data to ~200 ID to SECTRA since ~2-3 years ago but older scans are on CD / hard drive in the lab
Start loading "things" to ARIES using the SECTRA PACS to pull to Posda & curate there.
Many dates will be converted into intervals, perhaps age-at-time-of-X
There are items in AccessDB that are being converted to REDcap
Collection 2: Dataset(s) from NDL
Aaron
Passthrough ARIES IDs? Or consistent process through Sohrab's tool for this lab's project IDs? He can set this up for NDL (does not have linkages required for AR-CDR or SECTRA
Discussion with Aaron and Bill to set up sharedrive to pull data into Posda
ORIGINAL DATA: DICOM
"Processed Data" - NIfTI then (BIDS which also works with EEG format with JSON sidecar) CIfTI? (to consider later)
Spreadsheets associated have been deidentified; do NOT yet have ARIES ID in the spreadsheets - interval offsets can be applied programmatically but may not yet have been
Collection 3: Dataset(s) from IoA
Aaron
Sohrab needs to know who from their team needs access to the utility that will create IDs for their study
Aaron can pass a bag of disks of images for import to Posda
Collection 4: Dataset(s) from MMdb
Phil
Can pull from SECTRA to Posda with project distinctions via AETitles
On the Horizon
Fred
Brukker etc for small animal imaging
NIfTI
CIfTI
BIDS
Aperio
Action items
Stand up a wiki
meeting notes
collections status
infrastructure status (infrastructure notes page that is team-restricted)
Plan next step toward Neurocog data transfer: NOT YET.
Plan next steps toward DICOM data transfer
Posda instance upgrade
NBIA instance upgrade
SECTRA PACS send of TT3 (nonTCIA) data
Next step for Gait lab data transfer
Aaron reports Gohar will input their subject ID / MRN and Sohrab can work with those; then we can use the ARIES ID to link to (b) SECTRA and (c) AR-CDR
Sohrab & Mahanaz are writng a paper about mapping identities for J Biomed Inform with Fred; this describes both “giving you a new ID” and “taking your research ID” into the database.
Phil and Michael have a functioning query-retrieve from the SECTRA PACS. This has fed 10 data to "TCIA test dev Posda", Bill reports he and Terri are doing well managing this process. They are preparing to set up pipelines to feed to ARIES-Posda as well.
8-23-19 Bill can send from Horos to ARIES but there's nothing at the NBIA end we can send to today
8-23-19 Jeff has finished branding + structure today and tomorrow - Fred to work with him on Menu items
8-23-19 Kirk has tested user access UAT and is confident we can use that