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alphatims.utils
alphatims.bruker
alphatims.plotting
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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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Q
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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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Z
_
__init__() (alphatims.bruker.TimsTOF method)
(alphatims.utils.Global_Stack method)
(alphatims.utils.Option_Stack method)
A
accumulation_times (alphatims.bruker.TimsTOF property)
acquisition_mode (alphatims.bruker.TimsTOF property)
add_intensity_to_bin() (in module alphatims.bruker)
alphatims.bruker
module
alphatims.plotting
module
alphatims.utils
module
as_dataframe() (alphatims.bruker.TimsTOF method)
B
bin_intensities() (alphatims.bruker.TimsTOF method)
C
calculate_dia_cycle_mask() (in module alphatims.bruker)
calculate_global_calibrated_mz_values() (alphatims.bruker.TimsTOF method)
calibrated_mz_max_value (alphatims.bruker.TimsTOF property)
calibrated_mz_min_value (alphatims.bruker.TimsTOF property)
calibrated_mz_values (alphatims.bruker.TimsTOF property)
centroid_spectra() (in module alphatims.bruker)
check_github_version() (in module alphatims.utils)
convert_from_indices() (alphatims.bruker.TimsTOF method)
convert_slice_key_to_float_array() (in module alphatims.bruker)
convert_slice_key_to_int_array() (in module alphatims.bruker)
convert_to_indices() (alphatims.bruker.TimsTOF method)
create_dict_from_hdf_group() (in module alphatims.utils)
create_hdf_group_from_dict() (in module alphatims.utils)
current_value (alphatims.utils.Option_Stack property)
current_values (alphatims.utils.Global_Stack property)
D
dia_mz_cycle (alphatims.bruker.TimsTOF property)
dia_precursor_cycle (alphatims.bruker.TimsTOF property)
directory (alphatims.bruker.TimsTOF property)
E
estimate_strike_count() (alphatims.bruker.TimsTOF method)
F
filter_indices() (in module alphatims.bruker)
filter_spectra_by_abundant_peaks() (in module alphatims.bruker)
filter_tof_to_csr() (in module alphatims.bruker)
fragment_frames (alphatims.bruker.TimsTOF property)
frame_max_index (alphatims.bruker.TimsTOF property)
frames (alphatims.bruker.TimsTOF property)
G
get_dia_push_indices() (in module alphatims.bruker)
Global_Stack (class in alphatims.utils)
H
heatmap() (in module alphatims.plotting)
I
index_precursors() (alphatims.bruker.TimsTOF method)
indptr_lookup() (in module alphatims.bruker)
init_bruker_dll() (in module alphatims.bruker)
intensity_corrections (alphatims.bruker.TimsTOF property)
intensity_max_value (alphatims.bruker.TimsTOF property)
intensity_min_value (alphatims.bruker.TimsTOF property)
intensity_values (alphatims.bruker.TimsTOF property)
is_compressed (alphatims.bruker.TimsTOF property)
is_locked (alphatims.utils.Global_Stack property)
L
line_plot() (in module alphatims.plotting)
load_parameters() (in module alphatims.utils)
lock() (alphatims.utils.Global_Stack method)
M
max_accumulation_time (alphatims.bruker.TimsTOF property)
meta_data (alphatims.bruker.TimsTOF property)
mobility_max_value (alphatims.bruker.TimsTOF property)
mobility_min_value (alphatims.bruker.TimsTOF property)
mobility_values (alphatims.bruker.TimsTOF property)
module
alphatims.bruker
alphatims.plotting
alphatims.utils
mz_max_value (alphatims.bruker.TimsTOF property)
mz_min_value (alphatims.bruker.TimsTOF property)
mz_values (alphatims.bruker.TimsTOF property)
N
njit() (in module alphatims.utils)
O
open_bruker_d_folder() (in module alphatims.bruker)
option_name (alphatims.utils.Option_Stack property)
Option_Stack (class in alphatims.utils)
P
parse_decompressed_bruker_binary_type1() (in module alphatims.bruker)
parse_decompressed_bruker_binary_type2() (in module alphatims.bruker)
parse_keys() (in module alphatims.bruker)
pjit() (in module alphatims.utils)
precursor_indices (alphatims.bruker.TimsTOF property)
precursor_max_index (alphatims.bruker.TimsTOF property)
PrecursorFloatError
precursors (alphatims.bruker.TimsTOF property)
process_frame() (in module alphatims.bruker)
progress_callback() (in module alphatims.utils)
push_indptr (alphatims.bruker.TimsTOF property)
Q
quad_indptr (alphatims.bruker.TimsTOF property)
quad_mz_max_value (alphatims.bruker.TimsTOF property)
quad_mz_min_value (alphatims.bruker.TimsTOF property)
quad_mz_values (alphatims.bruker.TimsTOF property)
R
raw_quad_indptr (alphatims.bruker.TimsTOF property)
read_bruker_binary() (in module alphatims.bruker)
read_bruker_sql() (in module alphatims.bruker)
redo() (alphatims.utils.Global_Stack method)
(alphatims.utils.Option_Stack method)
rt_max_value (alphatims.bruker.TimsTOF property)
rt_values (alphatims.bruker.TimsTOF property)
S
sample_name (alphatims.bruker.TimsTOF property)
save_as_hdf() (alphatims.bruker.TimsTOF method)
save_as_mgf() (alphatims.bruker.TimsTOF method)
save_parameters() (in module alphatims.utils)
scan_max_index (alphatims.bruker.TimsTOF property)
set_logger() (in module alphatims.utils)
set_precursor() (in module alphatims.bruker)
set_progress_callback() (in module alphatims.utils)
set_threads() (in module alphatims.utils)
show_platform_info() (in module alphatims.utils)
show_python_info() (in module alphatims.utils)
size (alphatims.utils.Global_Stack property)
(alphatims.utils.Option_Stack property)
T
threadpool() (in module alphatims.utils)
tic_plot() (in module alphatims.plotting)
TimsTOF (class in alphatims.bruker)
tof_indices (alphatims.bruker.TimsTOF property)
tof_max_index (alphatims.bruker.TimsTOF property)
trim() (alphatims.utils.Global_Stack method)
(alphatims.utils.Option_Stack method)
trim_spectra() (in module alphatims.bruker)
U
undo() (alphatims.utils.Global_Stack method)
(alphatims.utils.Option_Stack method)
update() (alphatims.utils.Global_Stack method)
(alphatims.utils.Option_Stack method)
use_calibrated_mz_values_as_default() (alphatims.bruker.TimsTOF method)
V
valid_precursor_index() (in module alphatims.bruker)
valid_quad_mz_values() (in module alphatims.bruker)
version (alphatims.bruker.TimsTOF property)
Z
zeroth_frame (alphatims.bruker.TimsTOF property)
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