MiniAn
Getting Started
Pipeline
Cross-registration
Tips and Tricks
API Reference
Index
A
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C
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D
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E
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F
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G
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I
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K
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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W
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X
A
adj_corr() (in module minian.cnmf)
adj_list() (in module minian.cnmf)
AlignViewer (class in minian.visualization)
ANNOTATIONS (in module minian.utilities)
apply_transform() (in module minian.motion_correction)
C
cal_mapping() (in module minian.cross_registration)
calculate_centroid_distance() (in module minian.cross_registration)
calculate_centroids() (in module minian.cross_registration)
calculate_mapping() (in module minian.cross_registration)
cartesian() (in module minian.cross_registration)
centroid() (in module minian.visualization)
check_key() (in module minian.utilities)
check_pat() (in module minian.utilities)
check_temp() (in module minian.motion_correction)
CNMFViewer (class in minian.visualization)
compute_AtC() (in module minian.cnmf)
compute_trace() (in module minian.cnmf)
construct_G() (in module minian.visualization)
construct_pulse_response() (in module minian.visualization)
convolve_G() (in module minian.visualization)
custom_arr_optimize() (in module minian.utilities)
custom_delay_optimize() (in module minian.utilities)
custom_fused_keys_renamer() (in module minian.utilities)
D
da_label() (in module minian.initialization)
datashade_ndcurve() (in module minian.visualization)
denoise() (in module minian.preprocessing)
E
est_motion_chunk() (in module minian.motion_correction)
est_motion_part() (in module minian.motion_correction)
est_motion_perframe() (in module minian.motion_correction)
estimate_motion() (in module minian.motion_correction)
F
factors() (in module minian.utilities)
FAST_FUNCTIONS (in module minian.utilities)
fill_mapping() (in module minian.cross_registration)
filt_butter() (in module minian.cnmf)
filt_fft() (in module minian.cnmf)
filt_fft_vec() (in module minian.cnmf)
G
generate_videos() (in module minian.visualization)
get_ar_coef() (in module minian.cnmf)
get_bspline_param() (in module minian.motion_correction)
get_chk() (in module minian.utilities)
get_chunksize() (in module minian.utilities)
get_keys_pat() (in module minian.utilities)
get_mesh_size() (in module minian.motion_correction)
get_noise_fft() (in module minian.cnmf)
get_noise_welch() (in module minian.cnmf)
get_optimal_chk() (in module minian.utilities)
gmm_refine() (in module minian.initialization)
graph_optimize_corr() (in module minian.cnmf)
group_by_session() (in module minian.cross_registration)
I
idx_corr() (in module minian.cnmf)
initA() (in module minian.initialization)
initC() (in module minian.initialization)
inline_pattern() (in module minian.utilities)
intensity_refine() (in module minian.initialization)
K
ks_perseed() (in module minian.initialization)
ks_refine() (in module minian.initialization)
L
label_connected() (in module minian.cnmf)
load_avi_ffmpeg() (in module minian.utilities)
load_avi_lazy() (in module minian.utilities)
load_tif_lazy() (in module minian.utilities)
load_tif_perframe() (in module minian.utilities)
load_videos() (in module minian.utilities)
local_extreme() (in module minian.utilities)
local_max_roll() (in module minian.initialization)
lstsq_vec() (in module minian.cnmf)
M
max_proj_frame() (in module minian.initialization)
med_baseline() (in module minian.utilities)
minian.cnmf
module
minian.cross_registration
module
minian.initialization
module
minian.motion_correction
module
minian.preprocessing
module
minian.utilities
module
minian.visualization
module
module
minian.cnmf
minian.cross_registration
minian.initialization
minian.motion_correction
minian.preprocessing
minian.utilities
minian.visualization
N
NNsort() (in module minian.visualization)
noise_fft() (in module minian.cnmf)
noise_welch() (in module minian.cnmf)
norm() (in module minian.visualization)
normalize() (in module minian.visualization)
O
open_minian() (in module minian.utilities)
open_minian_mf() (in module minian.utilities)
optimize_chunk() (in module minian.utilities)
P
pd_dist() (in module minian.cross_registration)
pnr_perseed() (in module minian.initialization)
pnr_refine() (in module minian.initialization)
ptp_q() (in module minian.initialization)
R
rechunk_like() (in module minian.utilities)
remove_background() (in module minian.preprocessing)
remove_background_perframe() (in module minian.preprocessing)
resolve() (in module minian.cross_registration)
resolve_mapping() (in module minian.cross_registration)
rewrite_key() (in module minian.utilities)
S
save_minian() (in module minian.utilities)
seeds_init() (in module minian.initialization)
seeds_merge() (in module minian.initialization)
show() (minian.visualization.AlignViewer method)
(minian.visualization.CNMFViewer method)
(minian.visualization.VArrayViewer method)
smooth_corr() (in module minian.cnmf)
smooth_sig() (in module minian.cnmf)
split_key() (in module minian.utilities)
sps_any() (in module minian.cnmf)
subset_pairs() (in module minian.cross_registration)
T
TaskAnnotation (class in minian.utilities)
transform_perframe() (in module minian.motion_correction)
U
unique_keys() (in module minian.utilities)
unit_merge() (in module minian.cnmf)
update_background() (in module minian.cnmf)
update_graph() (minian.utilities.TaskAnnotation method)
update_spatial() (in module minian.cnmf)
update_spatial_block() (in module minian.cnmf)
update_spatial_perpx() (in module minian.cnmf)
update_temporal() (in module minian.cnmf)
update_temporal_block() (in module minian.cnmf)
update_temporal_cvxpy() (in module minian.cnmf)
V
VArrayViewer (class in minian.visualization)
visualize_gmm_fit() (in module minian.visualization)
visualize_motion() (in module minian.visualization)
visualize_preprocess() (in module minian.visualization)
visualize_seeds() (in module minian.visualization)
visualize_spatial_update() (in module minian.visualization)
visualize_temporal_update() (in module minian.visualization)
W
write_video() (in module minian.visualization)
X
xrconcat_recursive() (in module minian.utilities)