SPMdStatistical Parametric Mapping DiagnosisA toolbox for SPMBy Wen-Lin Luo, Hui Zhang & Thomas Nichols |
This page... News Introduction Distribution Documentation Support SPMd5b SPMd5b bugs and fixes SPMd2 SPMd2 bugs and fixes SPMd2 example for single condition SPMd2 example for multiple condition SPMd2 example for group data SPMd99 manual Thanks |
News
Introduction
Currently there are two versions, SPMd99, a version for SPM99, which is no longer being developed, SPMd2, a version for SPM2. To download please fill out a brief registration form so we can track SPMd usage. You will then be given a URL with an embedded keyword which will let you download the software. If you do download it and find it useful (or not!), or have any problems, please let us know, spmd-authors@umich.edu |
SPMd5b - released October, 2006
This is the SPMd toolbox for SPM5. While it has been tested in-house, it is still considered a beta release.
SPMd5b has all the features for SPMd2 plus the same image read and write functionality as SPM5.
In addition to using SPM5 library routines, the results output format is closer to the SPM5 format. Specifically, it will read Analyze and NIfTI images and write NIfTI images.
Distribution and installation instructions are given below.
Please report bugs to <spmd-authors@umich.edu>. Peculiarities and general queries should be raised on the SPM email discussion list. We will report patches to the list and make updates available if necessary.
SPMd2 - released 13th June, 2005
In addition to using SPM2 library routines, the results output format is closer to the SPM2 format. Also, SPMd2 has the 'click-to-see' feature of SPM2's results page.
Distribution and installation instructions are given below.
Please report bugs to <spmd-authors@umich.edu>. Peculiarities and general queries should be raised on the SPM email discussion list. We will report patches to the list and make updates available if necessary.
The SPMd toolbox is a small suite of MatLab functions and M-files that integrate with SPM routines. Thus, to use SPMd2 you must have already installed SPM2, and to use SPMd5b you must have already installed SPM5. See the SPM distribution page for SPM hardware & software requirements, downloading & installation instructions, and conditions of distribution. You should be familiar with SPM2 before using SPMd.
The software is available via FTP, but we ask you to complete a brief registration form prior to downloading. Having completed the form, you will be directed to the download location, via a keyword
enabled FTP URL. You should also periodically check the SPM5b bugs & fixes area and SPM2 bugs & fixes area.
Note SPMd99 is still availble. Use the same registration form to request the SPMd99 FTP URL.
Installation is relatively straightforward. Download the gzipped tar file and unzip it in a location where you want the SPMd5b or SPMd2 directory. Then, add the full pathname of this directory to your MATLABPATH. (You can check this by typing which spm
in MatLab and examining the path, or try spm ver
.)
You should also download any SPMd5b fixes or SPMd2 fixes, and replace older files shipped in the standard distribution.
For step by step instructions on downloading and installing SPM distributions, refer to the SPM distribution page.
References
There are currently two versions of one paper available on the methods mbodied in SPMd. The published manuscript is available at the NeuroImage website (or email for a PDF), while the full version, as submitted is available freely on the web:
The essential difference between the two versions is that the submitted version has detailed appendicies on the derivation of the various diagnostic statistics used.
SPMd is being made freely available to the functional Neuroimaging community in the same spirit as SPM. As with SPM, SPMd may be considered academic shareware. It is supplied as is, and no formal support or maintenance is provided or implied.
General SPMd issues and idiosyncrasies should be raised on the SPM email discussion list, at <spm_at_jiscmail.ac.uk>, which the authors monitor. Direct queries to the authors will usually be answered to the whole list.
The SPMd authors may be contacted at <spmd-authors@umich.edu>. Please report bugs to the authors direct. Suggestions for improvement are welcome, particularly those substantiated with code! Requests for specific design PlugIns will be considered, but necessarily as invitations for collaborative work.
See the SPM documentation & support page for further resources.
This section describes the bugs that have been reported, along with the appropriate fixes. Updated versions of appropriate SPMd5b functions are available from our anonymous FTP server in the spmd5updates directory: spmd5updates.
In recent update, we change the spm_get
used in SPM2 frequently to spm_select
used for SPM5.The updated files are provided in the above FTP link. Brief descriptions of the fixes are provided below.
spmd.m
spmd_comp_SS.m
As of November 2nd, a number of fixes to SPMd2 have been posted and the distributed release has also been updated. (And a few more on Nov 4th!) If you've already downloaded SPMd, you can download all of the fixes at once here: 051104.tar.gz.
Brief descriptions of the fixes are provided below; we'll post more comprehensive descriptions soon! All are contained in the spmd2_updates/ directory
spmd_stat.m
spmd_check_registration.m
spmd_MD.m
spmd_MD.m
spmd_project_vol.m
spmd_comp_MS.m
spmd_orthviews.m
spmd_SS.m
spmd.m
spmd_SD.m
spmd_comp_SS.m
We are indebted to everyone who has tried the software and reported bugs. We appreciate Helmut Laufs, Rute Martins, Juanjo Lull for reporting bugs for SPMd5b.
SPMd authors at <spmd-authors@umich.edu> Last modified: Mon Feb 4 15:02:52 EST 2008