DIMSPy
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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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J
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L
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M
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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
A
add_attribute() (dimspy.models.peaklist.PeakList method)
add_flag() (dimspy.models.peak_matrix.PeakMatrix method)
add_tag() (dimspy.models.peaklist_tags.PeakList_Tags method)
align_peaks() (in module dimspy.process.peak_alignment)
align_samples() (in module dimspy.tools)
attr_matrix() (dimspy.models.peak_matrix.PeakMatrix method)
attr_mean_vector() (dimspy.models.peak_matrix.PeakMatrix method)
attributes() (dimspy.models.peak_matrix.PeakMatrix property)
(dimspy.models.peaklist.PeakList property)
average_replicate_peaklists() (in module dimspy.process.replicate_processing)
average_replicate_scans() (in module dimspy.process.replicate_processing)
B
blank_filter() (in module dimspy.tools)
C
calculate_flags() (dimspy.models.peaklist.PeakList method)
cleanup_unflagged_peaks() (dimspy.models.peaklist.PeakList method)
close() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
copy() (dimspy.models.peaklist.PeakList method)
count_ms_types() (in module dimspy.metadata)
count_scan_types() (in module dimspy.metadata)
create_sample_list() (in module dimspy.tools)
D
dimspy.metadata (module)
dimspy.models.peak_matrix (module)
dimspy.models.peaklist (module)
dimspy.models.peaklist_metadata (module)
dimspy.models.peaklist_tags (module)
dimspy.portals.hdf5_portal (module)
dimspy.portals.mzml_portal (module)
dimspy.portals.paths (module)
dimspy.portals.thermo_raw_portal (module)
dimspy.portals.txt_portal (module)
dimspy.process.peak_alignment (module)
dimspy.process.peak_filters (module)
dimspy.process.replicate_processing (module)
dimspy.tools (module)
drop_all_tags() (dimspy.models.peaklist_tags.PeakList_Tags method)
drop_attribute() (dimspy.models.peaklist.PeakList method)
drop_flag() (dimspy.models.peak_matrix.PeakMatrix method)
drop_tag() (dimspy.models.peaklist_tags.PeakList_Tags method)
drop_tag_type() (dimspy.models.peaklist_tags.PeakList_Tags method)
dtable() (dimspy.models.peaklist.PeakList property)
E
extract_peaklist() (dimspy.models.peak_matrix.PeakMatrix method)
extract_peaklists() (dimspy.models.peak_matrix.PeakMatrix method)
F
filter_attr() (in module dimspy.process.peak_filters)
filter_blank_peaks() (in module dimspy.process.peak_filters)
filter_fraction() (in module dimspy.process.peak_filters)
filter_mz_ranges() (in module dimspy.process.peak_filters)
filter_ringing() (in module dimspy.process.peak_filters)
filter_rsd() (in module dimspy.process.peak_filters)
flag_attributes() (dimspy.models.peaklist.PeakList property)
flag_names() (dimspy.models.peak_matrix.PeakMatrix property)
flag_values() (dimspy.models.peak_matrix.PeakMatrix method)
flags() (dimspy.models.peak_matrix.PeakMatrix property)
(dimspy.models.peaklist.PeakList property)
fraction() (dimspy.models.peak_matrix.PeakMatrix property)
full_shape() (dimspy.models.peak_matrix.PeakMatrix property)
(dimspy.models.peaklist.PeakList property)
full_size() (dimspy.models.peaklist.PeakList property)
G
get_attribute() (dimspy.models.peaklist.PeakList method)
get_peak() (dimspy.models.peaklist.PeakList method)
H
has_attribute() (dimspy.models.peaklist.PeakList method)
has_tag() (dimspy.models.peaklist_tags.PeakList_Tags method)
has_tag_type() (dimspy.models.peaklist_tags.PeakList_Tags method)
hdf5_peak_matrix_to_txt() (in module dimspy.tools)
hdf5_peaklists_to_txt() (in module dimspy.tools)
headers() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
I
ID() (dimspy.models.peaklist.PeakList property)
idxs_reps_from_filelist() (in module dimspy.metadata)
insert_peak() (dimspy.models.peaklist.PeakList method)
intensity_matrix() (dimspy.models.peak_matrix.PeakMatrix property)
intensity_mean_vector() (dimspy.models.peak_matrix.PeakMatrix property)
interpret_method() (in module dimspy.metadata)
ion_injection_times() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
is_empty() (dimspy.models.peak_matrix.PeakMatrix method)
J
join_peaklists() (in module dimspy.process.replicate_processing)
L
load_peak_matrix_from_hdf5() (in module dimspy.portals.hdf5_portal)
load_peak_matrix_from_txt() (in module dimspy.portals.txt_portal)
load_peaklist_from_txt() (in module dimspy.portals.txt_portal)
load_peaklists() (in module dimspy.tools)
load_peaklists_from_hdf5() (in module dimspy.portals.hdf5_portal)
M
mask() (dimspy.models.peak_matrix.PeakMatrix property)
mask_all_peakmatrix (class in dimspy.models.peak_matrix)
mask_peakmatrix (class in dimspy.models.peak_matrix)
mask_tags() (dimspy.models.peak_matrix.PeakMatrix method)
merge_peaklists() (in module dimspy.tools)
metadata() (dimspy.models.peaklist.PeakList property)
missing_values() (dimspy.models.peak_matrix.PeakMatrix property)
missing_values_sample_filter() (in module dimspy.tools)
mode_type_from_header() (in module dimspy.metadata)
ms_type_from_header() (in module dimspy.metadata)
mz_matrix() (dimspy.models.peak_matrix.PeakMatrix property)
mz_mean_vector() (dimspy.models.peak_matrix.PeakMatrix property)
mz_range_from_header() (in module dimspy.metadata)
(in module dimspy.portals.thermo_raw_portal)
Mzml (class in dimspy.portals.mzml_portal)
O
occurrence() (dimspy.models.peak_matrix.PeakMatrix property)
P
partition() (in module dimspy.tools)
PeakList (class in dimspy.models.peaklist)
peaklist() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
peaklist_ids() (dimspy.models.peak_matrix.PeakMatrix property)
PeakList_Metadata (class in dimspy.models.peaklist_metadata)
peaklist_tag_types() (dimspy.models.peak_matrix.PeakMatrix property)
peaklist_tag_values() (dimspy.models.peak_matrix.PeakMatrix property)
PeakList_Tags (class in dimspy.models.peaklist_tags)
peaklist_tags() (dimspy.models.peak_matrix.PeakMatrix property)
peaklists() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
PeakMatrix (class in dimspy.models.peak_matrix)
peaks() (dimspy.models.peaklist.PeakList property)
present() (dimspy.models.peak_matrix.PeakMatrix property)
present_matrix() (dimspy.models.peak_matrix.PeakMatrix property)
process_scans() (in module dimspy.tools)
property() (dimspy.models.peak_matrix.PeakMatrix method)
purity() (dimspy.models.peak_matrix.PeakMatrix property)
R
read_scans() (in module dimspy.process.replicate_processing)
remove_edges() (in module dimspy.process.replicate_processing)
remove_empty_peaks() (dimspy.models.peak_matrix.PeakMatrix method)
remove_peak() (dimspy.models.peaklist.PeakList method)
remove_peaks() (dimspy.models.peak_matrix.PeakMatrix method)
remove_samples() (dimspy.models.peak_matrix.PeakMatrix method)
(in module dimspy.tools)
replicate_filter() (in module dimspy.tools)
rsd() (dimspy.models.peak_matrix.PeakMatrix method)
S
sample_filter() (in module dimspy.tools)
save_peak_matrix_as_hdf5() (in module dimspy.portals.hdf5_portal)
save_peak_matrix_as_txt() (in module dimspy.portals.txt_portal)
save_peaklist_as_txt() (in module dimspy.portals.txt_portal)
save_peaklists_as_hdf5() (in module dimspy.portals.hdf5_portal)
scan_dependents() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
scan_ids() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
scan_type_from_header() (in module dimspy.metadata)
set_attribute() (dimspy.models.peaklist.PeakList method)
set_peak() (dimspy.models.peaklist.PeakList method)
shape() (dimspy.models.peak_matrix.PeakMatrix property)
(dimspy.models.peaklist.PeakList property)
size() (dimspy.models.peaklist.PeakList property)
sort_ms_files_by_timestamp() (in module dimspy.portals.paths)
sort_peaks_order() (dimspy.models.peaklist.PeakList method)
T
Tag (class in dimspy.models.peaklist_tags)
tag_of() (dimspy.models.peaklist_tags.PeakList_Tags method)
tag_types() (dimspy.models.peaklist_tags.PeakList_Tags property)
tag_values() (dimspy.models.peaklist_tags.PeakList_Tags property)
tags() (dimspy.models.peaklist.PeakList property)
(dimspy.models.peaklist_tags.PeakList_Tags property)
tags_of() (dimspy.models.peak_matrix.PeakMatrix method)
ThermoRaw (class in dimspy.portals.thermo_raw_portal)
tics() (dimspy.portals.mzml_portal.Mzml method)
(dimspy.portals.thermo_raw_portal.ThermoRaw method)
to_df() (dimspy.models.peaklist.PeakList method)
to_dict() (dimspy.models.peaklist.PeakList method)
to_int() (in module dimspy.metadata)
to_list() (dimspy.models.peaklist.PeakList method)
(dimspy.models.peaklist_tags.PeakList_Tags method)
to_peaklist() (dimspy.models.peak_matrix.PeakMatrix method)
to_str() (dimspy.models.peak_matrix.PeakMatrix method)
(dimspy.models.peaklist.PeakList method)
(dimspy.models.peaklist_tags.PeakList_Tags method)
ttype() (dimspy.models.peaklist_tags.Tag property)
typed() (dimspy.models.peaklist_tags.Tag property)
typed_tags() (dimspy.models.peaklist_tags.PeakList_Tags property)
U
unmask_all_peakmatrix (class in dimspy.models.peak_matrix)
unmask_peakmatrix (class in dimspy.models.peak_matrix)
unmask_tags() (dimspy.models.peak_matrix.PeakMatrix method)
untyped_tags() (dimspy.models.peaklist_tags.PeakList_Tags property)
update_labels() (in module dimspy.metadata)
update_metadata_and_labels() (in module dimspy.metadata)
V
validate_and_sort_paths() (in module dimspy.portals.paths)
validate_metadata() (in module dimspy.metadata)
value() (dimspy.models.peaklist_tags.Tag property)
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