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Update lcms.md #750

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46 changes: 23 additions & 23 deletions context/app/markdown/docs/assay/lcms.md
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Expand Up @@ -48,29 +48,29 @@ Outline of the full ProTeomiX (PTX) Quality Control (QC) Report including metric
- 1.1 HeatMap
- 1.2 Name Mapping
- 1.3 Metrics
-- 1.3.1 PAR: parameters
-- 1.3.2 EVD: Top5 Contaminants per Raw file
-- 1.3.3 EVD: Contaminants
-- 1.3.4 EVD: peptide intensity distribution
-- 1.3.5 PG: intensity distribution
-- 1.3.6 MSMS: Missed cleavages per Raw file
-- 1.3.7 EVD: charge distribution
-- 1.3.8 PG: Contaminant per condition
-- 1.3.9 MSMSscans: TopN over RT
-- 1.3.10 EVD: IDs over RT
-- 1.3.11 EVD: Peak width over RT
-- 1.3.12 MSMSscans: Ion Injection Time over RT
-- 1.3.13 [experimental] MSMSscans: MS/MS intensity
-- 1.3.14 EVD: Oversampling (MS/MS counts per 3D-peak)
-- 1.3.15 EVD: Uncalibrated mass error
-- 1.3.16 EVD: Calibrated mass error
-- 1.3.17 MSMS: Fragment mass errors per Raw file
-- 1.3.18 SM: MS/MS identified per Raw file
-- 1.3.19 MSMSscans: TopN
-- 1.3.20 MSMSscans: TopN % identified over N
-- 1.3.21 Missing Values Skipped
-- 1.3.22 EVD: Peptide ID count
-- 1.3.23 EVD: ProteinGroups count
- 1.3.1 PAR: parameters
- 1.3.2 EVD: Top5 Contaminants per Raw file
- 1.3.3 EVD: Contaminants
- 1.3.4 EVD: peptide intensity distribution
- 1.3.5 PG: intensity distribution
- 1.3.6 MSMS: Missed cleavages per Raw file
- 1.3.7 EVD: charge distribution
- 1.3.8 PG: Contaminant per condition
- 1.3.9 MSMSscans: TopN over RT
- 1.3.10 EVD: IDs over RT
- 1.3.11 EVD: Peak width over RT
- 1.3.12 MSMSscans: Ion Injection Time over RT
- 1.3.13 [experimental] MSMSscans: MS/MS intensity
- 1.3.14 EVD: Oversampling (MS/MS counts per 3D-peak)
- 1.3.15 EVD: Uncalibrated mass error
- 1.3.16 EVD: Calibrated mass error
- 1.3.17 MSMS: Fragment mass errors per Raw file
- 1.3.18 SM: MS/MS identified per Raw file
- 1.3.19 MSMSscans: TopN
- 1.3.20 MSMSscans: TopN % identified over N
- 1.3.21 Missing Values Skipped
- 1.3.22 EVD: Peptide ID count
- 1.3.23 EVD: ProteinGroups count

See J. Proteome Res., 2016, 15 (3), pp 777-787. DOI: [10.1021/acs.jproteome.5b00780](https://doi.org/10.1021/acs.jproteome.5b00780) for further details.

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