No that will be a separate pipeline we are working on. We’d like it automated, which is an additional research project.
Matt. From: Yizhou Ma <maxxx...@umn.edu<mailto:maxxx...@umn.edu>> Date: Friday, March 15, 2019 at 4:26 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] multirun ICA question Thank you Matt. Just curious, will the tICA procedure in your new manuscript be included in this new pipeline? On Tue, Mar 12, 2019 at 2:28 PM Glasser, Matthew <glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote: That is quite similar to what we will be using for the HCP LifeSpan datasets. We do plan to retrain FIX including both HCP-YA and Lifespan datasets to make it a little more generalizable; however, that will be released at a later time when it is ready. Matt. From: Yizhou Ma <maxxx...@umn.edu<mailto:maxxx...@umn.edu>> Date: Tuesday, March 12, 2019 at 7:26 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] multirun ICA question We will have 3302 timepoints in total. On Tue, Mar 12, 2019 at 2:24 PM Glasser, Matthew <glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote: What you concatenate is entirely up to the user, so you can set it up to concatenate all the subject’s fMRI data if you like. An official HCP Pipelines release in imminent, but we have a couple of last things we want to get in there. We will be requiring FSL 6.0.1 going forward for all HCP Pipelines, which was released yesterday. How many total timepoints will you have if you concatenate all of the fMRI runs? Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Yizhou Ma <maxxx...@umn.edu<mailto:maxxx...@umn.edu>> Date: Tuesday, March 12, 2019 at 7:17 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] multirun ICA question Dear HCP experts, I am preprocessing some HCP-style data with the HCP preprocessing pipeline and I have some questions regarding multirun ICA. Our functional data were collected over two sessions. Session 1 has two resting scans (TR=0.8, length=6.5min each). Session 2 has two resting scans (TR=0.8s, length=6.5min each) and 3 task scans (TR=0.8s, length=6min each). In using multiICAFIX it seems that only fMRI scans from the same session will be automatically concatenated for ICA. Thus my questions are 1) is there a way to adjust the pipeline to make multiICAFIX concatenate my fMRI scans from both sessions? and 2) If not, will the length of scans in either session be long enough to allow for adequate ICAFIX performance? Thank you very much, Yizhou Ma PhD Candidate Clinical Science and Psychopathology Research Department of Psychology University of Minnesota _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ 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. ________________________________ 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. ________________________________ 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. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
