pymzML
2.5.10
1. Introduction
2. Quick Start
3. pymzML module content
4. Examples and Advanced Usage
5. Supplemental Material
pymzML
Index
Index
_
|
A
|
C
|
E
|
F
|
G
|
H
|
I
|
M
|
N
|
P
|
R
|
S
|
T
|
W
_
__add__() (pymzml.spec.Spectrum method)
__getitem__() (pymzml.file_classes.indexedGzip.IndexedGzip method)
(pymzml.file_classes.standardGzip.StandardGzip method)
(pymzml.file_classes.standardMzml.StandardMzml method)
(pymzml.file_interface.FileInterface method)
(pymzml.run.Reader method)
(pymzml.spec.Spectrum method)
__init__() (pymzml.file_classes.indexedGzip.IndexedGzip method)
(pymzml.file_classes.standardGzip.StandardGzip method)
(pymzml.file_classes.standardMzml.StandardMzml method)
(pymzml.file_interface.FileInterface method)
(pymzml.plot.Factory method)
__mul__() (pymzml.spec.Spectrum method)
__sub__() (pymzml.spec.Spectrum method)
__truediv__() (pymzml.spec.Spectrum method)
_allocate_index_bytes() (pymzml.utils.GSGW.GSGW method)
_binary_search() (pymzml.file_classes.standardMzml.StandardMzml method)
_build_index() (pymzml.file_classes.indexedGzip.IndexedGzip method)
(pymzml.file_classes.standardGzip.StandardGzip method)
(pymzml.file_classes.standardMzml.StandardMzml method)
_build_index_from_scratch() (pymzml.file_classes.standardMzml.StandardMzml method)
_check_magic_bytes() (pymzml.utils.GSGR.GSGR method)
_indexed_gzip() (pymzml.file_interface.FileInterface method)
_interpol_search() (pymzml.file_classes.standardMzml.StandardMzml method)
_open() (pymzml.file_interface.FileInterface method)
_read_basic_header() (pymzml.utils.GSGR.GSGR method)
_read_extremes() (pymzml.file_classes.standardMzml.StandardMzml method)
_read_index() (pymzml.utils.GSGR.GSGR method)
_search_linear() (pymzml.file_classes.standardMzml.StandardMzml method)
_write_data() (pymzml.utils.GSGW.GSGW method)
_write_gen_header() (pymzml.utils.GSGW.GSGW method)
_write_identifier() (pymzml.utils.GSGW.GSGW method)
_write_offset() (pymzml.utils.GSGW.GSGW method)
A
add() (pymzml.plot.Factory method)
add_data() (pymzml.utils.GSGW.GSGW method)
C
Chromatogram (class in pymzml.spec)
CHROMATOGRAM_AND_SPECTRUM_PATTERN_WITH_ID (in module pymzml.regex_patterns)
CHROMATOGRAM_CLOSE_PATTERN (in module pymzml.regex_patterns)
CHROMATOGRAM_ID_PATTERN (in module pymzml.regex_patterns)
CHROMATOGRAM_PATTERN (in module pymzml.regex_patterns)
E
encoding (pymzml.utils.GSGW.GSGW property)
estimated_noise_level() (pymzml.spec.Spectrum method)
extreme_values() (pymzml.spec.Spectrum method)
F
Factory (class in pymzml.plot)
file_class (pymzml.run.Reader property)
FILE_ENCODING_PATTERN (in module pymzml.regex_patterns)
file_out (pymzml.utils.GSGW.GSGW property)
FileInterface (class in pymzml.file_interface)
G
get() (pymzml.spec.Spectrum method)
get_chromatogram_count() (pymzml.run.Reader method)
get_data() (pymzml.plot.Factory method)
get_element_by_name() (pymzml.spec.MS_Spectrum method)
get_element_by_path() (pymzml.spec.MS_Spectrum method)
get_spectrum_count() (pymzml.run.Reader method)
GSGR (class in pymzml.utils.GSGR)
GSGW (class in pymzml.utils.GSGW)
H
has_overlapping_peak() (pymzml.spec.Spectrum method)
has_peak() (pymzml.spec.Spectrum method)
highest_peaks() (pymzml.spec.Spectrum method)
I
i (pymzml.spec.Spectrum property)
ID (pymzml.spec.Spectrum property)
id_dict (pymzml.spec.Spectrum property)
index (pymzml.spec.Spectrum property)
IndexedGzip (class in pymzml.file_classes.indexedGzip)
info() (pymzml.plot.Factory method)
M
main() (in module access_run_info)
(in module compare_spectra)
(in module deprecation_check)
(in module extract_ion_chromatogram)
(in module get_precursors)
(in module gzip_mzml)
(in module has_peak)
(in module highest_peaks)
(in module multi_threading_file_compression)
(in module plot_chromatogram)
(in module plot_spectrum)
(in module plot_spectrum_with_annotation)
(in module polarity)
(in module queryOBO)
(in module simple_parser)
(in module simple_parser_v2)
measured_precision (pymzml.spec.MS_Spectrum property)
(pymzml.spec.Spectrum property)
MOBY_DICK_CHAPTER_PATTERN (in module pymzml.regex_patterns)
module
pymzml.obo
pymzml.plot
pymzml.regex_patterns
pymzml.run
pymzml.spec
ms_level (pymzml.spec.Spectrum property)
MS_Spectrum (class in pymzml.spec)
mz (pymzml.spec.Spectrum property)
N
new_plot() (pymzml.plot.Factory method)
newPlot() (pymzml.plot.Factory method)
next() (pymzml.run.Reader method)
P
peaks() (pymzml.spec.Chromatogram method)
(pymzml.spec.Spectrum method)
ppm2abs() (pymzml.spec.Spectrum method)
precursors (pymzml.spec.Spectrum property)
profile (pymzml.spec.Chromatogram property)
pymzml.obo
module
pymzml.plot
module
pymzml.regex_patterns
module
pymzml.run
module
pymzml.spec
module
R
read() (pymzml.file_classes.indexedGzip.IndexedGzip method)
(pymzml.file_classes.standardGzip.StandardGzip method)
(pymzml.file_classes.standardMzml.StandardMzml method)
(pymzml.file_interface.FileInterface method)
(pymzml.utils.GSGR.GSGR method)
read_block() (pymzml.utils.GSGR.GSGR method)
Reader (class in pymzml.run)
reduce() (pymzml.spec.Spectrum method)
remove_noise() (pymzml.spec.Spectrum method)
S
save() (pymzml.plot.Factory method)
scan_time (pymzml.spec.Spectrum property)
scan_time_in_minutes() (pymzml.spec.Spectrum method)
seek() (pymzml.utils.GSGR.GSGR method)
selected_precursors (pymzml.spec.Spectrum property)
set_peaks() (pymzml.spec.Spectrum method)
SIM_INDEX_PATTERN (in module pymzml.regex_patterns)
similarity_to() (pymzml.spec.Spectrum method)
Spectrum (class in pymzml.spec)
SPECTRUM_CLOSE_PATTERN (in module pymzml.regex_patterns)
SPECTRUM_ID_PATTERN2 (in module pymzml.regex_patterns)
SPECTRUM_INDEX_PATTERN (in module pymzml.regex_patterns)
SPECTRUM_OPEN_PATTERN (in module pymzml.regex_patterns)
SPECTRUM_TAG_PATTERN (in module pymzml.regex_patterns)
StandardGzip (class in pymzml.file_classes.standardGzip)
StandardMzml (class in pymzml.file_classes.standardMzml)
T
t_mz_set (pymzml.spec.Spectrum property)
TIC (pymzml.spec.Spectrum property)
time (pymzml.spec.Chromatogram property)
to_string() (pymzml.spec.MS_Spectrum method)
transform_mz() (pymzml.spec.Spectrum method)
transformed_mz_with_error (pymzml.spec.Spectrum property)
transformed_peaks (pymzml.spec.Spectrum property)
W
write_index() (pymzml.utils.GSGW.GSGW method)