Man pages for tkostas/viewMQ
Visualization of MaxQuant output files for proteomics studies

add_groupsAdd groups based on experiment name.
experimentsView names of the different experiments
MQ_evidence_Andromeda_scorePlot Andromeda score distribution using MaxQuant output
MQ_evidence_charge_stateCharge state distribution using MaxQuant output
MQ_evidence_intensity_boxplotPlot peptide intensities for individual experiments using...
MQ_evidence_missed_cleavagesPlot number of missed cleavages using MaxQuant output
MQ_evidence_modificationsPeptide modifications distribution using MaxQuant output
MQ_evidence_MSMS_countPlot MS/MS count distribution using MaxQuant output
MQ_evidence_pept_intPlot peptide intensity distrubition using MaxQuant output
MQ_evidence_ppm_errorPlot ppm error distribution using MaxQuant output
MQ_evidence_ppm_error_boxplotPlot ppm error intensities for individual experiments using...
MQ_evidence_resolutionPlot instrument resolution distribution using MaxQuant output
MQ_evidence_RTPlot run retention time distribution using MaxQuant output
MQ_evidence_RT_lengthPlot peptide retention time distribution using MaxQuant...
MQ_remove_bysiteRemove proteins indentified only by modified peptides from...
MQ_remove_contaminantsRemove contaminants from MaxQuant output files
MQ_remove_reverseRemove reverse sequences from MaxQuant output files
MQ_summary_isopatterns_seqNumber of isotopic patterns sequenced (z > 1) (read from...
MQ_summary_isopatterns_seq_percentPercent of isotopic patterns sequenced (z > 1) (read from...
MQ_summary_isopatterns_seq_percent_repPercent of isotopic patterns sequenced repeatedly (z > 1)...
MQ_summary_MS1_spectraNumber of MS1 spectra aquired (read from MaxQuant...
MQ_summary_MS2_idNumber of MS2 spectra identified (read from MaxQuant...
MQ_summary_MS2_spectraNumber of MS2 spectra aquired (read from MaxQuant...
MQ_summary_MSMSid_percentPercent of MSMS spectra identified using MaxQuant summary...
MQ_summary_MSvsMSMSView number of MS1 and MS2 spectra per sample from...
MQ_summary_peaksNumber of peaks identified (read from MaxQuant summary.txt)
MQ_summary_peaks_seqNumber of peaks sequenced (read from MaxQuant summary.txt)
MQ_summary_peaks_seq_percentPercent of peaks sequenced (read from MaxQuant summary.txt)
MQ_summary_pept_idNumber of peptide sequences identified (read from MaxQuant...
tkostas/viewMQ documentation built on Dec. 1, 2017, 1 p.m.