ImmunoPheno
0.1.0
OVERVIEW
What is ImmunoPheno?
TUTORIALS
Tutorial 1: Finding Antibodies for Gating a Specific Cell Population
Tutorial 2: Normalizing CITE-seq data
Tutorial 3: Automated Annotation of Cell Identities in mIHC Data
Tutorial 4: Design of Antibody Panels
GALAXY USAGE
Galaxy Platform: Normalizing CITE-Seq Data
Galaxy Platform: Automated Annotation of Cell Identities in mIHC Data
Galaxy Platform: Design of Antibody Panels
API
Normalizing CITE-Seq Data
Querying the Database
Plots
ImmunoPheno
Index
Index
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C
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D
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F
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G
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I
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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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W
_
__getitem__() (immunopheno.data_processing.ImmunoPhenoData method)
C
convert_labels() (immunopheno.data_processing.ImmunoPhenoData method)
D
db_stats() (immunopheno.connect.ImmunoPhenoDB_Connect method)
F
filter_labels() (immunopheno.connect.ImmunoPhenoDB_Connect method)
find_antibodies() (immunopheno.connect.ImmunoPhenoDB_Connect method)
find_celltypes() (immunopheno.connect.ImmunoPhenoDB_Connect method)
find_experiments() (immunopheno.connect.ImmunoPhenoDB_Connect method)
fit_all_antibodies() (immunopheno.data_processing.ImmunoPhenoData method)
fit_antibody() (immunopheno.data_processing.ImmunoPhenoData method)
fits (immunopheno.data_processing.ImmunoPhenoData property)
G
get_quadrant_points() (immunopheno.connect.ImmunoPhenoDB_Connect method)
I
ImmunoPhenoData (class in immunopheno.data_processing)
ImmunoPhenoDB_Connect (class in immunopheno.connect)
imputed_reference (immunopheno.connect.ImmunoPhenoDB_Connect attribute)
L
labels (immunopheno.data_processing.ImmunoPhenoData property)
M
merge_quadrants() (immunopheno.connect.ImmunoPhenoDB_Connect method)
N
normalize_all_antibodies() (immunopheno.data_processing.ImmunoPhenoData method)
normalized_counts (immunopheno.data_processing.ImmunoPhenoData property)
O
optimal_antibody_panel() (immunopheno.connect.ImmunoPhenoDB_Connect method)
P
plot_ab_fit() (in module immunopheno.models)
plot_all_fits() (in module immunopheno.models)
plot_db_graph() (immunopheno.connect.ImmunoPhenoDB_Connect method)
plot_filter_metrics() (in module immunopheno.plots)
plot_quadtree() (immunopheno.connect.ImmunoPhenoDB_Connect method)
plot_UMAP() (in module immunopheno.plots)
protein (immunopheno.data_processing.ImmunoPhenoData property)
R
remove_antibody() (immunopheno.data_processing.ImmunoPhenoData method)
rna (immunopheno.data_processing.ImmunoPhenoData property)
run_dt() (immunopheno.connect.ImmunoPhenoDB_Connect method)
run_stvea() (immunopheno.connect.ImmunoPhenoDB_Connect method)
S
select_mixture_model() (immunopheno.data_processing.ImmunoPhenoData method)
setup_quadtree() (immunopheno.connect.ImmunoPhenoDB_Connect method)
T
transfer_matrix (immunopheno.connect.ImmunoPhenoDB_Connect attribute)
U
url (immunopheno.connect.ImmunoPhenoDB_Connect attribute)
W
which_antibodies() (immunopheno.connect.ImmunoPhenoDB_Connect method)
which_celltypes() (immunopheno.connect.ImmunoPhenoDB_Connect method)
which_experiments() (immunopheno.connect.ImmunoPhenoDB_Connect method)