Brain Mapping Center

How2 Document - EQ

Indications:

For treatment of minor inhomogeneities and discomfort
To benefit for people running segmentation algorithms

The complete documentation for this algorithm can be found at: this link as it appeared in Human Brain Mapping.
The source for EQ is located at: This Link

Treatment:

For Volumes or images from the Signa (your input is indicated in BOLD in these sample transcripts)

1. Copy the images to a local directory (using e.g., ximg)

   transcript:

   >telnet 3TMR Trying 128.97.134.52... Connected to UC3T_OC0.loni.ucla.edu. Escape character is '^]'. SunOS UNIX (UC3T_OC0) login: genesis Password: genesis @ UC3T_OC0 1: ximg -i E2564S1Iall -t -s Accessing image database. Extracting image file: /usr/g/insite/tmp/E2564S1I1.MR ... genesis @ UC3T_OC0 2:exit

2. Convert these to Analyze file format, preserving the headers:

   transcript:

   > Genesis2Analyze E*.MR ... mv: E2530S4I003.MR and E2530S4I003.MR are identical. mv: E2530S4I002.MR and E2530S4I002.MR are identical. mv: E2530S4I001.MR and E2530S4I001.MR are identical. WARNING: Computer and data differ in byte order Patience for a moment Created Analyze (4D) file: E2530S4.img Save these files!: E2530S4.NAME_FILE and E2530S4.GenesisHdrs To create corresponding genesis images from an analyze file named XXX.img, use: Analyze2Genesis -n E2530S4.NAME_FILE -i XXX.img >

3. Run EQ:

   transcript:

   > EQ -i E2530S4.img -o EQd EQ $Revision: 1.3 $$Date: 2001/10/05 21:54:03 $ Working Done. Thank you for using EQ. mscohen@ucla.edu -- http://www.brainmapping.org >

   (you might wish to use the -V (verbose) option, as the program will otherwise be silent for about 2 minutes while it works

4. Convert the images back to Signa format

   transcript:

   > Analyze2Genesis -n E2530S4.NAME_FILE -i EQd.img Using E2530S4.GenesisHdrs for genesis headers ......................................................... ................................................... >