Package: chromConverter 0.7.0

chromConverter: Chromatographic File Converter

Reads chromatograms from binary formats into R objects. Currently supports conversion of 'Agilent ChemStation', 'Agilent MassHunter', 'Shimadzu LabSolutions', 'ThermoRaw', and 'Varian Workstation' files as well as various text-based formats. In addition to its internal parsers, chromConverter contains bindings to parsers in external libraries, such as 'Aston' <https://github.com/bovee/aston>, 'Entab' <https://github.com/bovee/entab>, 'rainbow' <https://rainbow-api.readthedocs.io/>, and 'ThermoRawFileParser' <https://github.com/compomics/ThermoRawFileParser>.

Authors:Ethan Bass [aut, cre], James Dillon [ctb, cph], Evan Shi [ctb, cph]

chromConverter_0.7.0.tar.gz
chromConverter_0.7.0.zip(r-4.5)chromConverter_0.7.0.zip(r-4.4)chromConverter_0.7.0.zip(r-4.3)
chromConverter_0.7.0.tgz(r-4.4-any)chromConverter_0.7.0.tgz(r-4.3-any)
chromConverter_0.7.0.tar.gz(r-4.5-noble)chromConverter_0.7.0.tar.gz(r-4.4-noble)
chromConverter_0.7.0.tgz(r-4.4-emscripten)chromConverter_0.7.0.tgz(r-4.3-emscripten)
chromConverter.pdf |chromConverter.html
chromConverter/json (API)
NEWS

# Install 'chromConverter' in R:
install.packages('chromConverter', repos = c('https://ethanbass.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/ethanbass/chromconverter/issues

On CRAN:

cheminformaticschromatographyfair-datagc-fidhplchplc-dadhplc-uvmetabolomicsmetabolomics-dataopen-dataopen-science

6.29 score 28 stars 3 packages 11 scripts 305 downloads 36 exports 47 dependencies

Last updated 1 months agofrom:767f867101. Checks:OK: 6 ERROR: 1. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 04 2024
R-4.5-winOKNov 04 2024
R-4.5-linuxOKNov 04 2024
R-4.4-winOKNov 04 2024
R-4.4-macOKNov 04 2024
R-4.3-winOKNov 04 2024
R-4.3-macERRORNov 04 2024

Exports:call_entabcall_openchromcall_rainbowconfigure_openchromconfigure_python_environmentextract_metadataread_agilent_dread_agilent_dxread_asmread_cdfread_chemstation_chread_chemstation_csvread_chemstation_msread_chemstation_reportsread_chemstation_uvread_chromeleonread_chromsread_mdfread_mzmlread_peaklistread_shimadzuread_shimadzu_gcdread_shimadzu_lcdread_shimadzu_qgdread_sz_lcd_2dread_sz_lcd_3dread_thermorawread_varian_peaklistread_varian_smsread_waters_arwread_waters_rawsp_converteruv_converterwrite_andi_chromwrite_chromswrite_mzml

Dependencies:base64encbitbit64bitopscellrangerclicpp11crayondata.tabledigestdplyrfansifsgenericsglueherehmsjsonlitelatticelifecyclemagrittrMatrixpillarpkgconfigpngprettyunitsprogresspurrrR6RaMSrappdirsRcppRcppTOMLreadxlrematchreticulaterlangrprojrootstringistringrtibbletidyrtidyselectutf8vctrswithrxml2

Readme and manuals

Help Manual

Help pageTopics
Call Entab Converts files using Entab parserscall_entab
Parse files with OpenChromcall_openchrom
Parse Agilent or Waters files with rainbow parsercall_rainbow
Configure OpenChrom parserconfigure_openchrom
Extract metadataextract_metadata
Read files from 'ChemStation' .D directoriesread_agilent_d
Parser for reading Agilent ('.dx') files into Rread_agilent_dx
Read Allotrope Simple Model (ASM) 2D chromatogramsread_asm
Read CDF fileread_cdf
Read 'ChemStation' CH filesread_chemstation_ch
Read Chemstation CSVread_chemstation_csv
Read 'Agilent ChemStation' MS file.read_chemstation_ms
Read 'Agilent ChemStation' Reportsread_chemstation_reports
Read 'ChemStation' DAD filesread_chemstation_uv
Chromeleon ASCII readerread_chromeleon
Read Chromatogramsread_chroms
Read 'Lumex' MDF files into Rread_mdf
Extract data from mzML filesread_mzml
Read peak listsread_peaklist
Shimadzu ascii readerread_shimadzu
Shimadzu GCD parserread_shimadzu_gcd
Shimadzu LCD parserread_shimadzu_lcd
Read 'Shimadzu' QGDread_shimadzu_qgd
Shimadzu LCD 2D parserread_sz_lcd_2d
Shimadzu LCD 3D parserread_sz_lcd_3d
Read ThermoRaw files into R using ThermoRawFileParserread_thermoraw
Read 'Varian' peaklist. Read peak list(s) from 'Varian MS Workstation'.read_varian_peaklist
Read 'Varian' SMSread_varian_sms
Waters ascii (.arw) readerread_waters_arw
Read 'Waters' RAWread_waters_raw
Converter for 'Agilent MassHunter' UV filessp_converter
Converter for 'Agilent ChemStation' UV filesuv_converter
Write ANDI chrom CDF file from chromatogramwrite_andi_chrom
Export chromatogramswrite_chroms
Write mzMLwrite_mzml