<s>
CONN	B-Algorithm
is	O
a	O
Matlab-based	O
cross-platform	O
imaging	B-Application
software	I-Application
for	O
the	O
computation	O
,	O
display	O
,	O
and	O
analysis	O
of	O
functional	O
connectivity	O
in	O
fMRI	B-Algorithm
(	O
functional	B-Algorithm
Magnetic	I-Algorithm
Resonance	I-Algorithm
Imaging	I-Algorithm
)	O
in	O
the	O
resting	B-Algorithm
state	I-Algorithm
and	O
during	O
task	O
.	O
</s>
<s>
CONN	B-Algorithm
is	O
available	O
as	O
an	O
SPM	O
toolbox	O
,	O
as	O
well	O
as	O
precompiled	O
binaries	O
for	O
MacOS/Windows/Linux	O
environments	O
,	O
and	O
it	O
is	O
freely	O
available	O
for	O
non-commercial	O
use	O
.	O
</s>
<s>
CONN	B-Algorithm
includes	O
a	O
user-friendly	O
GUI	O
to	O
manage	O
all	O
aspects	O
of	O
functional	O
connectivity	O
analyses	O
,	O
including	O
preprocessing	O
of	O
functional	O
and	O
anatomical	O
volumes	O
,	O
elimination	O
of	O
subject-movement	O
and	O
physiological	O
noise	O
,	O
outlier	O
scrubbing	O
,	O
estimation	O
of	O
multiple	O
connectivity	O
and	O
network	O
measures	O
,	O
and	O
population-level	O
hypothesis	O
testing	O
.	O
</s>
<s>
CONN	B-Algorithm
preprocessing	O
pipeline	O
includes	O
steps	O
designed	O
to	O
estimate	O
and	O
correct	O
effects	O
derived	O
from	O
subject	O
motion	O
within	O
the	O
scanner	O
(	O
realignment	O
)	O
,	O
correct	O
spatial	O
distortions	O
due	O
to	O
inhomogeneities	O
in	O
the	O
magnetic	O
field	O
(	O
susceptibility	O
distortion	O
correction	O
)	O
,	O
correct	O
for	O
temporal	O
misalignment	O
across	O
slices	O
(	O
slice	O
timing	O
correction	O
)	O
,	O
identify	O
potential	O
outlier	O
images	O
within	O
each	O
scanning	O
session	O
(	O
outlier	O
identification	O
)	O
,	O
classify	O
different	O
tissue	O
types	O
from	O
each	O
subject	O
's	O
anatomy	O
(	O
segmentation	O
)	O
,	O
or	O
align	O
functional	O
and	O
anatomical	O
data	O
across	O
different	O
subjects	O
(	O
functional	O
or	O
anatomical	O
normalization	O
)	O
.	O
</s>
<s>
CONN	B-Algorithm
computes	O
multiple	O
measures	O
of	O
functional	O
connectivity	O
,	O
including	O
Fisher-transformed	O
Pearson	O
correlation	O
coefficients	O
between	O
the	O
BOLD	O
timeseries	O
from	O
different	O
regions	O
of	O
interest	O
(	O
ROIs	O
)	O
,	O
as	O
well	O
as	O
with	O
every	O
voxel	B-Algorithm
in	O
the	O
brain	O
.	O
</s>
<s>
CONN	B-Algorithm
supports	O
statistical	O
inferences	O
of	O
functional	O
connectivity	O
properties	O
of	O
a	O
population	O
from	O
the	O
observed	O
properties	O
of	O
individual	O
subjects	O
in	O
a	O
smaller	O
sample	O
using	O
a	O
multivariate	O
General	O
Linear	O
Model	O
framework	O
and	O
Likelihood-ratio	B-General_Concept
test	I-General_Concept
statistics	O
.	O
</s>
<s>
Analyses	O
that	O
combine	O
functional	O
connectivity	O
measures	O
from	O
multiple	O
ROIs	O
or	O
voxels	B-Algorithm
also	O
incorporate	O
additional	O
multiple	B-General_Concept
comparison	I-General_Concept
corrections	O
such	O
as	O
False	B-General_Concept
Discovery	I-General_Concept
Rate	I-General_Concept
,	O
parametric	O
methods	O
based	O
on	O
the	O
theory	O
of	O
continuous	O
random	O
fields	O
,	O
and	O
non-parametric	O
cluster-level	O
statistics	O
.	O
</s>
<s>
CONN	B-Algorithm
is	O
written	O
by	O
Alfonso	O
Nieto-Castanon	O
.	O
</s>
<s>
The	O
first	O
release	O
of	O
CONN	B-Algorithm
was	O
in	O
2011	O
and	O
there	O
has	O
been	O
approximately	O
one	O
major	O
new	O
release	O
each	O
year	O
to	O
date	O
.	O
</s>
<s>
Since	O
its	O
release	O
CONN	B-Algorithm
has	O
been	O
downloaded	O
over	O
100,000	O
times	O
,	O
and	O
it	O
has	O
been	O
cited	O
in	O
over	O
3,500	O
publications	O
.	O
</s>
<s>
It	O
is	O
included	O
in	O
the	O
NIH	O
funded	O
Neuroimaging	B-Algorithm
Informatics	O
Tools	O
and	O
Resources	O
Clearinghouse	O
(	O
NITRC	O
)	O
list	O
of	O
top-10	O
tools	O
and	O
resources	O
in	O
neuroimaging	B-Algorithm
,	O
and	O
the	O
NITRC	O
forum	O
has	O
indexed	O
to	O
date	O
over	O
10,000	O
posts	O
of	O
software	O
support	O
from	O
CONN	B-Algorithm
's	O
developers	O
and	O
community	O
.	O
</s>
