Colortable for gifti file (label.gii)

[杨国元]

Hi HCP experts,

I have a question about how to change the colortable for gifti file (xxx.label.gii). I have used the python nibabel package to read the label file, the command is just as nibabel.gifti.giftiio.read(xxx.label.gii). Then, the format of the object is <nibabel.gifti.gifti.GiftiImage>. Further, how to get this object's colortable and modify it with my own defined colortable? Thanks for your time.

Best regards,

Guoyuan

Guoyuan Yang

Center for MRI Research

School of Physics

Peking University

Beijing, China

Tel：18800172884

Email：yangg...@pku.edu.cn

[Coalson, Timothy Scott (S&T-Student)]

I haven't used nibabel, but I found this page that might help:

https://nipy.org/nibabel/reference/nibabel.gifti.html#nibabel.gifti.gifti.GiftiImage

which among other things, mentions "get_labeltable method deprecated. Use the gifti_img.labeltable property instead.", so "<your_object>.labeltable" sounds like a good starting point.  The GiftiLabelTable object is described on the same page, which is what I expect is the type of that property.

If you want to do this outside of python, wb_command -label-export table will give you a text file with all the names, keys, and colors for all labels, and -metric-label-import will let you set the names/keys/colors with the same format of text file.  There are similar commands for cifti and volume files.

Tim

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From: 杨国元 <yangg...@pku.edu.cn>
Sent: Thursday, April 8, 2021 8:55 AM
To: hcp-...@humanconnectome.org <hcp-...@humanconnectome.org>
Subject: [hcp-users] Colortable for gifti file (label.gii)

 

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[杨国元]

Hi Tim,

Thanks for your reply, the problem has been solved with wb_command. In addition, I have a small question. For the dtseries.nii file with 1200 time points, if I want to split it into two dtseries.nii files which including 700 and 500 time points. How to do that? Thanks a lot.

Best

Guoyuan

-----原始邮件-----
发件人:"Coalson, Timothy Scott (S&T-Student)" <tsc...@mst.edu>
发送时间:2021-04-09 04:37:44 (星期五)
收件人: "hcp-...@humanconnectome.org" <hcp-...@humanconnectome.org>
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主题: Re: [hcp-users] Colortable for gifti file (label.gii)

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[Glasser, Matthew]

You can use wb_command -cifti-merge.

 

Matt.

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