Hi there,

I have completed recon-all on a subject but the output is terrible. I have since found multiple series on the CD that was supplied for the subject's scan using "dcmunpack" the output was:

Found 7 unique series: 1 4 5 6 7 8 9 Subject XXXXX Date 20120114 Time 082517 Institution Hagley Radiology 1 loc 1.372 5.032 30 0.9375 ROW 244.141 /home/will/Dropbox/BrainformLtd/Freesurfer/November2014/NB/NBScan1/Z01 4 T2AXIALPROP 91.82775 4500.0 90.0 0.429688 ROW 325.39062 /<path to dicoms>/Z15 5 SAGT1FLAIR 7.64 2657.82 90 0.4688 ROW 195.312 /<path to dicoms>/Z53 6 SAGT2FRFSE 88.272 1900 90 0.4297 ROW 122.07 /<path to dicoms>/Z82 7 CORT2FLAIR 167.7 9502 90 0.4102 ROW 162.773 /<path to dicoms>/Z99 8 DWIASSET 88.5 7750 90 0.8594 COL 1953.12 /<path to dicoms>/Z141 9 Ax3DSWAN 22.876 38.2 15 0.4102 ROW 162.773 /<path to dicoms>/Z203

I'm wondering if an expert could advise me on the best next step of progress to improve the output. I only need the pial surfaces and stats. Presumably series 1 is the T1 series? Should I use T2 also? if so which one and how? Please excuse my ignorance.

Thanks, Will Brown