Package: chromConverter 0.9.0

chromConverter: Chromatographic File Converter

Reads chromatograms from binary formats into R objects. Currently supports conversion of 'Agilent ChemStation', 'Agilent MassHunter', 'Agilent OpenLab', 'Shimadzu LabSolutions', 'ThermoRaw', 'Varian Workstation', and 'Waters Empower' files as well as various other 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_0.9.0.tar.gz
chromConverter_0.9.0.zip(r-4.7)chromConverter_0.9.0.zip(r-4.6)chromConverter_0.9.0.zip(r-4.5)
chromConverter_0.9.0.tgz(r-4.6-any)chromConverter_0.9.0.tgz(r-4.5-any)
chromConverter_0.9.0.tar.gz(r-4.7-any)chromConverter_0.9.0.tar.gz(r-4.6-any)
chromConverter_0.9.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html
card.svg |card.png
chromConverter/json (API)
NEWS

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

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

Pkgdown/docs site:https://ethanbass.github.io

On CRAN:

Conda:

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

6.61 score 49 stars 2 packages 12 scripts 479 downloads 39 exports 46 dependencies

Last updated from:6884128fca. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK184
source / vignettesOK214
linux-release-x86_64OK175
macos-release-arm64OK140
macos-oldrel-arm64OK142
windows-develOK393
windows-releaseOK364
windows-oldrelOK169
wasm-releaseOK126

Exports:call_entabcall_openchromcall_rainbowconfigure_openchromconfigure_python_environmentextract_metadataread_acamlread_agilent_amxread_agilent_dread_agilent_dxread_asmread_cdfread_chemstation_chread_chemstation_csvread_chemstation_msread_chemstation_reportsread_chemstation_uvread_chromatotecread_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.tabledigestdplyrfsgenericsglueherehmsjsonlitelatticelifecyclemagrittrMatrixpillarpkgconfigpngprettyunitsprogresspurrrR6RaMSrappdirsRcppRcppTOMLreadxlrematchreticulaterlangrprojrootstringistringrtibbletidyrtidyselectutf8vctrswithrxml2

Readme and manuals

Help Manual

Help pageTopics
Call Entabcall_entab
Parse files with OpenChromcall_openchrom
Call 'rainbow' parsers Parse 'Agilent' or 'Waters' files with rainbow parserscall_rainbow
Configure 'OpenChrom' parserconfigure_openchrom
Extract metadataextract_metadata
Print a chrom_list objectprint.chrom_list
Read 'Agilent' ACAML files from directory.read_acaml
Read Agilent AMX method fileread_agilent_amx
Read files from 'Agilent ChemStation' .D directoriesread_agilent_d
Read 'Agilent' DX filesread_agilent_dx
Read 'Allotrope Simple Model' (ASM) 2D chromatogramsread_asm
Read CDFread_cdf
Read 'Agilent ChemStation' CH filesread_chemstation_ch
Read 'Agilent ChemStation' CSV filesread_chemstation_csv
Read 'Agilent ChemStation' MS file.read_chemstation_ms
Read 'Agilent ChemStation' report files.read_chemstation_reports
Read 'Agilent ChemStation' DAD filesread_chemstation_uv
Read 'Chromatotec' fileread_chromatotec
Read 'Chromeleon' ASCII filesread_chromeleon
Read Chromatogramsread_chroms
Read 'Lumex' MDFread_mdf
Read mzML filesread_mzml
Read peak listsread_peaklist
Read 'Shimadzu' ASCIIread_shimadzu
Read 'Shimadzu' GCDread_shimadzu_gcd
Read 'Shimadzu' LCDread_shimadzu_lcd
Read 'Shimadzu' QGD filesread_shimadzu_qgd
Read 'Shimadzu' LCD 2D dataread_sz_lcd_2d
Read 'Shimadzu' LCD 3D dataread_sz_lcd_3d
Read ThermoRawread_thermoraw
Read 'Varian' peak list.read_varian_peaklist
Read 'Varian' SMSread_varian_sms
Read 'Waters' ASCII (.arw)read_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
Write chromatogramswrite_chroms
Write mzMLwrite_mzml