Metacell
0.5.1
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Readme
License (MIT)
Code:
package
coverage
Metacell
Docs
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Index
Index
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A
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B
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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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H
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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
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Y
_
__init__() (metacell.dash.app.ComponentData method)
(metacell.dash.app.ResampledHeatmap method)
(metacell.storage.genes.Genes method)
(metacell.storage.genes.GenesMetadata method)
(metacell.storage.genes.GenesSet method)
(metacell.storage.genes.GenesSubset method)
(metacell.storage.imports.CsvFormat method)
(metacell.storage.imports.DelaneData method)
(metacell.storage.imports.DirFormat method)
(metacell.storage.imports.LaneData method)
(metacell.storage.imports.ProfileData method)
(metacell.storage.matrices.MemoryMappedMatrix method)
(metacell.storage.metadata.YamlMetadata method)
(metacell.storage.profiles.CombinedMetadata method)
(metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesBatch method)
(metacell.storage.profiles.ProfilesCollection method)
(metacell.storage.profiles.ProfilesCollectionMetadata method)
(metacell.storage.profiles.ProfilesGroups method)
(metacell.storage.profiles.ProfilesMetadata method)
(metacell.storage.profiles.ProfilesView method)
A
add_entry() (metacell.storage.imports.LaneData method)
add_into_gp_array() (metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesCollection method)
(metacell.storage.profiles.ProfilesView method)
add_profile_data() (metacell.storage.matrices.MemoryMappedMatrix method)
aggregation (metacell.dash.app.ResampledHeatmap attribute)
aggregations (metacell.dash.app.ResampledHeatmap attribute)
any_array() (metacell.storage.genes.Genes method)
(metacell.storage.genes.GenesSet method)
(metacell.storage.genes.GenesSubset method)
(metacell.storage.profiles.Profiles method)
any_frame() (metacell.storage.profiles.Profiles method)
any_matrix() (metacell.storage.profiles.Profiles method)
any_series() (metacell.storage.profiles.Profiles method)
app() (in module metacell.dash.app)
apply_filter_action() (in module metacell.dash.app)
array() (metacell.storage.genes.Genes method)
(metacell.storage.profiles.Profiles method)
as_dict() (metacell.storage.metadata.YamlMetadata method)
(metacell.storage.profiles.CombinedMetadata method)
(metacell.storage.profiles.ProfilesCollectionMetadata method)
available_data() (metacell.storage.genes.Genes method)
(metacell.storage.genes.GenesSet method)
(metacell.storage.genes.GenesSubset method)
(metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesCollection method)
(metacell.storage.profiles.ProfilesView method)
B
base_gene_index() (metacell.storage.profiles.ProfilesView method)
base_gene_indices (metacell.storage.profiles.ProfilesView attribute)
base_profile_index() (metacell.storage.profiles.ProfilesView method)
base_profile_indices (metacell.storage.profiles.ProfilesView attribute)
base_profiles (metacell.storage.profiles.ProfilesView attribute)
by_name (metacell.dash.app.ComponentData attribute)
C
call() (in module metacell.dynamake.common)
close() (metacell.storage.matrices.MemoryMappedMatrix method)
column_scale (metacell.dash.app.ResampledHeatmap attribute)
combine_uuids() (in module metacell.storage.helpers)
(in module metacell.utilities)
combined_profiles (metacell.storage.profiles.ProfilesCollectionMetadata attribute)
CombinedMetadata (class in metacell.storage.profiles)
component() (in module metacell.dash.app)
ComponentData (class in metacell.dash.app)
container (metacell.storage.profiles.ProfilesBatchMetadata attribute)
(metacell.storage.profiles.ProfilesCollectionMetadata attribute)
(metacell.storage.profiles.ProfilesGroupsMetadata attribute)
(metacell.storage.profiles.ProfilesMetadata attribute)
(metacell.storage.profiles.ProfilesViewMetadata attribute)
container_index_of_profile() (metacell.storage.profiles.ProfilesCollection method)
containers (metacell.storage.profiles.ProfilesCollection attribute)
convert_10x() (in module metacell.dynamake.importation)
convert_hca() (in module metacell.dynamake.importation)
convert_moca() (in module metacell.dynamake.importation)
count (metacell.storage.genes.Genes attribute)
created() (metacell.storage.genes.Genes static method)
(metacell.storage.profiles.ProfilesBatch static method)
(metacell.storage.profiles.ProfilesCollection static method)
(metacell.storage.profiles.ProfilesGroups static method)
(metacell.storage.profiles.ProfilesView static method)
CsvFormat (class in metacell.storage.imports)
D
data (metacell.dash.app.ResampledHeatmap attribute)
data_of_lanes (metacell.storage.imports.DelaneData attribute)
data_of_profiles (metacell.storage.imports.DelaneData attribute)
data_path() (metacell.storage.genes.GenesSet method)
(metacell.storage.profiles.Profiles method)
DEFAULT_MAX_COLUMNS (in module metacell.dash.app)
DEFAULT_MAX_ROWS (in module metacell.dash.app)
DEFAULT_PAGE_SIZE (in module metacell.dash.main)
DelaneData (class in metacell.storage.imports)
detect_cls() (metacell.storage.metadata.YamlMetadata static method)
(metacell.storage.profiles.ProfilesMetadata static method)
dir_paths() (metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesBatch method)
(metacell.storage.profiles.ProfilesCollection method)
(metacell.storage.profiles.ProfilesView method)
DirFormat (class in metacell.storage.imports)
display_frame() (metacell.dash.app.ResampledHeatmap method)
dump() (metacell.storage.metadata.YamlMetadata method)
dumper (metacell.dash.app.ComponentData attribute)
E
ecall() (in module metacell.dynamake.common)
entries_count() (metacell.storage.matrices.MemoryMappedMatrix method)
entry_lines (metacell.storage.imports.LaneData attribute)
erequire_ancestor() (in module metacell.dynamake.common)
F
field_names (metacell.storage.imports.CsvFormat attribute)
field_types (metacell.storage.imports.CsvFormat attribute)
file_uuid() (in module metacell.storage.helpers)
(in module metacell.utilities)
first_profile_indices (metacell.storage.profiles.ProfilesCollection attribute)
frame() (metacell.dash.app.ResampledHeatmap property)
(metacell.storage.profiles.Profiles method)
full (metacell.storage.genes.Genes attribute)
G
Genes (class in metacell.storage.genes)
genes (metacell.storage.imports.DirFormat attribute)
(metacell.storage.profiles.Profiles attribute)
genes_count (metacell.storage.genes.GenesMetadata attribute)
(metacell.storage.matrices.MemoryMappedMatrix attribute)
(metacell.storage.profiles.ProfilesMetadata attribute)
GENES_DEPENDENT_DATA (metacell.storage.profiles.ProfilesView attribute)
genes_uuid (metacell.storage.profiles.ProfilesMetadata attribute)
GenesMetadata (class in metacell.storage.genes)
GenesSet (class in metacell.storage.genes)
GenesSubset (class in metacell.storage.genes)
get_lane() (metacell.storage.imports.DelaneData method)
group_few_profiles() (in module metacell.dynamake.group)
group_many_profiles() (in module metacell.dynamake.group)
grouped_kind() (in module metacell.storage.profiles)
grouped_profiles (metacell.storage.profiles.ProfilesGroups attribute)
groups_kind() (in module metacell.storage.profiles)
H
has_array() (metacell.storage.genes.Genes method)
(metacell.storage.genes.GenesSet method)
(metacell.storage.genes.GenesSubset method)
(metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesCollection method)
(metacell.storage.profiles.ProfilesView method)
has_matrix() (metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesCollection method)
(metacell.storage.profiles.ProfilesView method)
I
id (metacell.dash.app.ComponentData attribute)
included_indices (metacell.storage.genes.GenesSubset attribute)
index_by_name (metacell.storage.profiles.ProfilesCollection attribute)
index_in_lane (metacell.storage.imports.ProfileData attribute)
is_slicing() (metacell.storage.profiles.ProfilesView method)
is_slicing_genes() (metacell.storage.profiles.ProfilesView method)
is_slicing_profiles() (metacell.storage.profiles.ProfilesView method)
L
lane_data (metacell.storage.imports.ProfileData attribute)
LaneData (class in metacell.storage.imports)
last_profile_data_line_index (metacell.storage.imports.LaneData attribute)
layout (metacell.dash.app.ResampledHeatmap attribute)
load() (metacell.dash.app.ComponentData method)
(metacell.storage.genes.Genes static method)
(metacell.storage.metadata.YamlMetadata class method)
(metacell.storage.profiles.Profiles static method)
loader (metacell.dash.app.ComponentData attribute)
M
MAGIC_BYTES (in module metacell.storage.matrices)
MAGIC_SIZE (in module metacell.storage.matrices)
main() (in module metacell.bin.metacell_call)
(in module metacell.bin.metacell_import)
(in module metacell.bin.metacell_make)
(in module metacell.dash.main)
matrix() (metacell.storage.profiles.Profiles method)
max_columns (metacell.dash.app.ResampledHeatmap attribute)
max_rows (metacell.dash.app.ResampledHeatmap attribute)
MemoryMappedMatrix (class in metacell.storage.matrices)
metacell (module)
metacell.analyze (module)
metacell.bin (module)
metacell.bin.metacell_call (module)
metacell.bin.metacell_import (module)
metacell.bin.metacell_make (module)
metacell.dash (module)
metacell.dash.app (module)
metacell.dash.main (module)
metacell.dash.plots (module)
metacell.dynamake (module)
metacell.dynamake.analysis (module)
metacell.dynamake.common (module)
metacell.dynamake.group (module)
metacell.dynamake.importation (module)
metacell.dynamake.view (module)
metacell.few_profiles (module)
metacell.many_profiles (module)
metacell.parameters (module)
metacell.pick (module)
metacell.storage (module)
metacell.storage.genes (module)
metacell.storage.hca (module)
metacell.storage.helpers (module)
metacell.storage.imports (module)
metacell.storage.matrices (module)
metacell.storage.metadata (module)
metacell.storage.profiles (module)
metacell.storage.views (module)
metacell.tracks (module)
metacell.utilities (module)
metacell.version (module)
metacell.visualizations (module)
metadata (metacell.storage.genes.GenesSet attribute)
(metacell.storage.profiles.Profiles attribute)
(metacell.storage.profiles.ProfilesBatch attribute)
(metacell.storage.profiles.ProfilesCollection attribute)
(metacell.storage.profiles.ProfilesGroups attribute)
(metacell.storage.profiles.ProfilesView attribute)
mmap (metacell.storage.matrices.MemoryMappedMatrix attribute)
N
name (metacell.storage.imports.LaneData attribute)
(metacell.storage.profiles.CombinedMetadata attribute)
(metacell.storage.profiles.Profiles attribute)
names (metacell.storage.genes.Genes attribute)
nans_count() (in module metacell.utilities)
non_nans_count() (in module metacell.utilities)
O
only_lowest_ranks() (in module metacell.utilities)
open() (metacell.storage.profiles.ProfilesMetadata method)
organism (metacell.storage.genes.GenesMetadata attribute)
(metacell.storage.profiles.ProfilesMetadata attribute)
P
parse_filter_query() (in module metacell.dash.app)
path (metacell.storage.metadata.YamlMetadata attribute)
profile_indices() (metacell.storage.profiles.Profiles method)
profile_name() (metacell.storage.profiles.Profiles method)
(metacell.storage.profiles.ProfilesBatch method)
(metacell.storage.profiles.ProfilesCollection method)
profile_names() (metacell.storage.profiles.Profiles method)
ProfileData (class in metacell.storage.imports)
Profiles (class in metacell.storage.profiles)
profiles (metacell.storage.imports.DirFormat attribute)
profiles_count (metacell.storage.imports.LaneData attribute)
(metacell.storage.matrices.MemoryMappedMatrix attribute)
(metacell.storage.profiles.CombinedMetadata attribute)
(metacell.storage.profiles.Profiles attribute)
(metacell.storage.profiles.ProfilesMetadata attribute)
PROFILES_DEPENDENT_DATA (metacell.storage.profiles.ProfilesView attribute)
profiles_kind (metacell.storage.profiles.ProfilesMetadata attribute)
ProfilesBatch (class in metacell.storage.profiles)
ProfilesBatchMetadata (class in metacell.storage.profiles)
ProfilesCollection (class in metacell.storage.profiles)
ProfilesCollectionMetadata (class in metacell.storage.profiles)
ProfilesGroups (class in metacell.storage.profiles)
ProfilesGroupsMetadata (class in metacell.storage.profiles)
ProfilesMetadata (class in metacell.storage.profiles)
ProfilesView (class in metacell.storage.profiles)
ProfilesViewMetadata (class in metacell.storage.profiles)
properties (metacell.dash.app.ComponentData attribute)
R
rank_array() (in module metacell.utilities)
RawMatrix (in module metacell.storage.profiles)
relayout_figure() (metacell.dash.app.ResampledHeatmap method)
removed_keys (metacell.storage.metadata.YamlMetadata attribute)
required_keys (metacell.storage.genes.GenesMetadata attribute)
(metacell.storage.metadata.YamlMetadata attribute)
(metacell.storage.profiles.ProfilesCollectionMetadata attribute)
(metacell.storage.profiles.ProfilesGroupsMetadata attribute)
(metacell.storage.profiles.ProfilesMetadata attribute)
(metacell.storage.profiles.ProfilesViewMetadata attribute)
ResampledHeatmap (class in metacell.dash.app)
reset_stat_button() (in module metacell.dash.app)
row_scale (metacell.dash.app.ResampledHeatmap attribute)
S
save_button() (in module metacell.dash.app)
separator (metacell.storage.imports.CsvFormat attribute)
series() (metacell.storage.profiles.Profiles method)
sliding_window_functions() (in module metacell.utilities)
standard_format_file() (in module metacell.dynamake.importation)
start_column (metacell.dash.app.ResampledHeatmap attribute)
start_row (metacell.dash.app.ResampledHeatmap attribute)
stop_column (metacell.dash.app.ResampledHeatmap attribute)
stop_row (metacell.dash.app.ResampledHeatmap attribute)
sum_profiles_loop() (in module metacell.storage.helpers)
(in module metacell.utilities)
superset (metacell.storage.genes.GenesSubset attribute)
T
to_numpy_matrix() (metacell.storage.matrices.MemoryMappedMatrix method)
total_umis() (metacell.storage.profiles.Profiles method)
U
uuid (metacell.storage.genes.Genes attribute)
(metacell.storage.metadata.YamlMetadata attribute)
(metacell.storage.profiles.CombinedMetadata attribute)
W
write() (metacell.storage.matrices.MemoryMappedMatrix static method)
(metacell.storage.profiles.Profiles method)
write_umis_matrix() (metacell.storage.imports.LaneData method)
Y
yaml_path (metacell.storage.metadata.YamlMetadata attribute)
YamlMetadata (class in metacell.storage.metadata)