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opentimsr (version 1.0.13)

An Open-Source Loader for Bruker's timsTOF Data Files

Description

A free, open-source package designed for handling .tdf data files produced by Bruker's 'timsTOF' mass spectrometers. Fast, free, crossplatform, with no reading through EULAs or messing with binary .dll files involved.

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Version

Install

install.packages('opentimsr')

Version

1.0.13

License

GPL-3

Issues

10

Pull Requests

1

Stars

50

Forks

14

Maintainer

Micha<c5><82> Piotr Startek

Last Published

March 29th, 2022

Functions in opentimsr (1.0.13)

tables_names

Extract tables from sqlite database analysis.tdf.
query_slice

Query for raw data.
query

Query for raw data.
CloseTIMS

Close the TIMS data handle and release all resources.
MS1

Get MS1 frame numbers.
retention_times

Get the retention time for each frame.
setup_bruker_so

Dynamically link Bruker's DLL to enable tof-mz and scan-inv_ion_mobility conversion.
rt_query

Get the retention time for each frame.
table2df

Extract tables from sqlite database analysis.tdf.
[,OpenTIMS-method

Get some frames of data.
explore.tdf.tables

Explore the contentents of the sqlite .tdf database.
min_max_measurements

Get border values for measurements.
peaks_per_frame_cnts

Get the number of peaks per frame.
length,OpenTIMS-method

Get the overall number of peaks.
opentims_set_threads

Set the number of threads to be used for data processing by OpenTIMS
download_bruker_proprietary_code

Get Bruker's code needed for running proprietary time of flight to mass over charge and scan to drift time conversion.
OpenTIMS-class

TimsTOF data accessor.
OpenTIMS

Get OpenTIMS data representation.
range,OpenTIMS-method

Select a range of frames to extract.