Index

A

as_dataframe() (sainsc.GridCounts method) assign_celltype() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method)

assignment_score (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

B

background (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property) built-in function sainsc.io.read_gem_file() sainsc.io.read_gem_header() sainsc.io.read_StereoSeq() sainsc.io.read_StereoSeq_bins() sainsc.io.read_Vizgen() sainsc.io.read_Xenium() sainsc.utils.celltype_signatures() sainsc.utils.epanechnikov_kernel() sainsc.utils.gaussian_kernel()

C

calculate_total_mRNA() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) calculate_total_mRNA_KDE() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) celltype_map (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

celltypes (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property) cosine_similarity (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property) counts (sainsc.LazyKDE attribute) (sainsc.lazykde.LazyKDE attribute) crop() (sainsc.GridCounts method)

F

filter_background() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) filter_genes_by_count() (sainsc.GridCounts method) filter_mask() (sainsc.GridCounts method)

find_local_maxima() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) from_dataframe() (sainsc.GridCounts class method) (sainsc.LazyKDE class method) (sainsc.lazykde.LazyKDE class method)

G

gaussian_kernel() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) gene_counts() (sainsc.GridCounts method) genes (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

genes() (sainsc.GridCounts method) get() (sainsc.GridCounts method) grid_counts() (sainsc.GridCounts method)

K

kde() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method)

kernel (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

L

load_local_maxima() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method)

local_maxima (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

M

module sainsc sainsc.io sainsc.lazykde sainsc.utils

N

n_threads (sainsc.GridCounts property) (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

P

plot_assignment_score() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) plot_celltype_map() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) plot_cosine_similarity() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) plot_genecount() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method)

plot_genecount_histogram() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) plot_KDE() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) plot_KDE_histogram() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method) plot_local_maxima() (sainsc.LazyKDE method) (sainsc.lazykde.LazyKDE method)

R

resolution (sainsc.GridCounts property) (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

S

sainsc module sainsc.GridCounts (built-in class) sainsc.io module sainsc.io.read_gem_file() built-in function sainsc.io.read_gem_header() built-in function sainsc.io.read_StereoSeq() built-in function sainsc.io.read_StereoSeq_bins() built-in function sainsc.io.read_Vizgen() built-in function sainsc.io.read_Xenium() built-in function sainsc.io.VIZGEN_CTRLS (built-in variable)

sainsc.io.XENIUM_CTRLS (built-in variable) sainsc.lazykde module sainsc.LazyKDE (built-in class) sainsc.lazykde.LazyKDE (built-in class) sainsc.lazykde.SCALEBAR_PARAMS (built-in variable) sainsc.utils module sainsc.utils.celltype_signatures() built-in function sainsc.utils.epanechnikov_kernel() built-in function sainsc.utils.gaussian_kernel() built-in function select_genes() (sainsc.GridCounts method) shape (sainsc.GridCounts attribute) (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

T

total_mRNA (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)

total_mRNA_KDE (sainsc.LazyKDE property) (sainsc.lazykde.LazyKDE property)