Index

A

Actions (class in pyMS.pyisocalc.canopy.sum_formula_actions) add_centroids() (pyMS.mass_spectrum.MassSpectrum method) add_spectrum() (pyMS.mass_spectrum.MassSpectrum method) (pyMS.MSdataset.MSdataset method) add_transition() (pyMS.mass_spectrum.MSn_spectrum method) amount() (pyMS.pyisocalc.pyisocalc.FormulaSegment method)

apodization() (in module pyMS.smoothing) apply_gaussian() (in module pyMS.pyisocalc.pyisocalc) apply_normalisation() (in module pyMS.normalisation) apply_smoothing() (in module pyMS.smoothing) average_mass() (pyMS.pyisocalc.pyisocalc.Element method) (pyMS.pyisocalc.pyisocalc.FormulaSegment method) (pyMS.pyisocalc.pyisocalc.SumFormula method)

C

cartesian() (in module pyMS.pyisocalc.pyisocalc), [1] charge() (pyMS.pyisocalc.pyisocalc.Element method) (pyMS.pyisocalc.pyisocalc.FormulaSegment method) (pyMS.pyisocalc.pyisocalc.SumFormula method) check_zeros() (in module pyMS.normalisation)

combine_fragments() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method) complete_isodist() (in module pyMS.pyisocalc.pyisocalc)

D

data_summary() (pyMS.MSdataset.MSdataset method)

E

Element (class in pyMS.pyisocalc.pyisocalc) element() (pyMS.pyisocalc.pyisocalc.FormulaSegment method)

expand_complex() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method) expand_fragment() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method)

F

fast_change() (in module pyMS.smoothing) format_error() (in module pyMS.pyisocalc.canopy.sum_formula)

FormulaSegment (class in pyMS.pyisocalc.pyisocalc) fwhm_to_sigma() (in module pyMS.pyisocalc.pyisocalc)

G

gen_approx_gaussian() (in module pyMS.pyisocalc.pyisocalc) gen_gaussian() (in module pyMS.pyisocalc.pyisocalc) get_segments() (pyMS.pyisocalc.pyisocalc.SumFormula method)

get_spectrum() (pyMS.mass_spectrum.MassSpectrum method) (pyMS.MSdataset.MSdataset method) gradient() (in module pyMS.centroid_detection) Grammar (class in pyMS.pyisocalc.canopy.sum_formula)

I

InvalidFormulaError

M

mad() (in module pyMS.normalisation) make_element() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method) make_formula() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method) make_number() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method) make_sf_adduct_database() (in module pyMS.pyisocalc.tools) make_sf_adduct_optimusfilter() (in module pyMS.pyisocalc.tools) make_simple_fragment() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method) mass_ratios() (pyMS.pyisocalc.pyisocalc.Element method)

mass_spectrum (in module pyMS.mass_spectrum) masses() (pyMS.pyisocalc.pyisocalc.Element method) MassSpectrum (class in pyMS.mass_spectrum) median() (in module pyMS.smoothing) MSdataset (class in pyMS.MSdataset) MSn_spectrum (class in pyMS.mass_spectrum) multiply_by_sign() (pyMS.pyisocalc.canopy.sum_formula_actions.Actions method)

N

name() (pyMS.pyisocalc.pyisocalc.Element method) none() (in module pyMS.normalisation) normalise_spectrum() (pyMS.mass_spectrum.MassSpectrum method)

normalize() (in module pyMS.pyisocalc.pyisocalc) nosmooth() (in module pyMS.smoothing) number() (pyMS.pyisocalc.pyisocalc.Element method)

P

parse() (in module pyMS.pyisocalc.canopy.sum_formula) (pyMS.pyisocalc.canopy.sum_formula.Parser method) ParseError Parser (class in pyMS.pyisocalc.canopy.sum_formula) parseSumFormula() (in module pyMS.pyisocalc.pyisocalc) perfect_pattern() (in module pyMS.pyisocalc.pyisocalc) pick_max_() (in module pyMS.centroid_detection) pyMS (module) pyMS.centroid_detection (module) pyMS.mass_spectrum (module) pyMS.MSdataset (module)

pyMS.normalisation (module) pyMS.pyisocalc (module) pyMS.pyisocalc.canopy (module) pyMS.pyisocalc.canopy.sum_formula (module) pyMS.pyisocalc.canopy.sum_formula_actions (module) pyMS.pyisocalc.periodic_table (module) pyMS.pyisocalc.pyisocalc (module) pyMS.pyisocalc.tools (module) pyMS.smoothing (module)

R

rebin() (in module pyMS.smoothing) REGEX_1 (pyMS.pyisocalc.canopy.sum_formula.Grammar attribute) REGEX_2 (pyMS.pyisocalc.canopy.sum_formula.Grammar attribute)

REGEX_3 (pyMS.pyisocalc.canopy.sum_formula.Grammar attribute) REGEX_4 (pyMS.pyisocalc.canopy.sum_formula.Grammar attribute) rms() (in module pyMS.normalisation)

S

sg_smooth() (in module pyMS.smoothing) shift_and_scale() (in module pyMS.normalisation) single_pattern_fft() (in module pyMS.pyisocalc.pyisocalc), [1]

smooth_spectrum() (pyMS.mass_spectrum.MassSpectrum method) sqrt() (in module pyMS.normalisation) SumFormula (class in pyMS.pyisocalc.pyisocalc)

T

tic() (in module pyMS.normalisation) total_points() (in module pyMS.pyisocalc.pyisocalc) TreeNode (class in pyMS.pyisocalc.canopy.sum_formula) TreeNode1 (class in pyMS.pyisocalc.canopy.sum_formula) TreeNode2 (class in pyMS.pyisocalc.canopy.sum_formula)

TreeNode3 (class in pyMS.pyisocalc.canopy.sum_formula) TreeNode4 (class in pyMS.pyisocalc.canopy.sum_formula) TreeNode5 (class in pyMS.pyisocalc.canopy.sum_formula) trim() (in module pyMS.pyisocalc.pyisocalc), [1]