Some questions about the HCP pipeline

52 views
Skip to first unread message

Aaron

unread,
Nov 7, 2022, 10:33:28 PM11/7/22
to HCP-Users
Dear HCP experts,

I have some questions about the HCP pipeline:

1. The voxel size of my structural data is only 1mm (isotropic). I saw the voxel size of the MNI template used in the HCP pipeline is 0.7mm. Should I change this to a 1mm template?

2. I saw the HCP pipeline has the following recent versions: v4.3.0, v4.4.0, v4.5.0 and v4.6.0-rc1 (https://github.com/Washington-University/HCPpipelines/tags). Only v4.3.0 is distributed as a release (https://github.com/Washington-University/HCPpipelines/releases). Would you please suggest which version I should use? Are there any major differences across these versions?

Thank you.

Glasser, Matt

unread,
Nov 7, 2022, 10:34:33 PM11/7/22
to hcp-...@humanconnectome.org
  1. Yes.
  2. We will be shortly tagging a new release.

 

Matt.

--
You received this message because you are subscribed to the Google Groups "HCP-Users" group.
To unsubscribe from this group and stop receiving emails from it, send an email to hcp-users+...@humanconnectome.org.
To view this discussion on the web visit https://groups.google.com/a/humanconnectome.org/d/msgid/hcp-users/c2d1091f-c9e6-4d42-85db-947ba807c1f8n%40humanconnectome.org.

 

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.

Aaron

unread,
Nov 19, 2022, 9:47:02 PM11/19/22
to HCP-Users, glas...@wustl.edu
I saw v4.6.0 was recently tagged. Is this the recommended version? Thank you.

Glasser, Matt

unread,
Nov 19, 2022, 10:18:04 PM11/19/22
to hcp-...@humanconnectome.org

There will be an announcement of the new version on HCP-Users with the changes.  Someone else can explain all these versions on GitHub.  There are good reasons for them that would be better for others to explain.

Tim Coalson

unread,
Nov 21, 2022, 2:58:45 PM11/21/22
to hcp-...@humanconnectome.org
We have run some processing internally that we plan to release in the future without reprocessing, so giving that a distinct pipelines release number is helpful to keep track of exactly what code version produced what data.  This is the reason for the extra version tags.

Tim


Aaron

unread,
Dec 2, 2022, 1:05:53 PM12/2/22
to HCP-Users, tim.c...@gmail.com
I'd like to process some data for now using the most recent HCP pipeline. Would you please suggest which version I should use for now? I saw v4.6.0, v4.6.1-rc.1, v4.6.1-rc.2, and v4.7.0-rc.1. Or, should I just stay at v4.3.0 release?

Are any of these versions including the methods proposed in these two papers?


Thank you.

Glasser, Matt

unread,
Dec 2, 2022, 1:44:03 PM12/2/22
to hcp-...@humanconnectome.org, tim.c...@gmail.com

There should be a 4.7.0 release, which you should use.  We will be making an announcement next week.

Aaron

unread,
Dec 8, 2022, 11:57:18 PM12/8/22
to HCP-Users, glas...@wustl.edu, tim.c...@gmail.com
Hi Matt,

I guess you are referring to this tagged version (https://github.com/Washington-University/HCPpipelines/releases/tag/v4.7.0)?

I processed some data using the previous 4.3.0 release. Would you please suggest if it is worth to reprocess the data using v4.7.0?

Or, could I just mix the data processed with different versions (v4.3.0 and v4.7.0)?

Thank you.

Glasser, Matt

unread,
Dec 9, 2022, 10:08:28 AM12/9/22
to Aaron, HCP-Users, tim.c...@gmail.com

We are going to put together some release notes and you can look through those and make your decision.  It’s always safest to be consistent about a processing version, but that can lead to wasted time if no significant changes were made to what you ran.

 

Matt.

Reply all
Reply to author
Forward
0 new messages