Commit 130cfa20 authored by Christer Ejsing's avatar Christer Ejsing
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README

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ALEX123 (Analysis of Lipid EXperiments, for processing FTMS, MS2 and MS3 data) is a software framework for analyzing high resolution shotgun and MALDI-based lipidomics data.
+ The procedure for high confidence lipid identification using MALDI-based FTMS and ITMS2 data, described in **Ellis et al. (2018, under review)**, can be downloaded from the library "**Example dataset 1**".
+ The procedure for high confidence lipid identification using MALDI-based FTMS and ITMS2 data, described in **[Ellis et al. Nat Methods (2018)](https://doi.org/10.1038/s41592-018-0010-6)**, can be downloaded from the library "**Example dataset 1**".
+ **Note** that *all* ALEX123 software modules are downloaded as part of the Example dataset.
+ The Example dataset also includes a user guide (.pdf).
......@@ -23,7 +23,7 @@ ALEX123 (Analysis of Lipid EXperiments, for processing FTMS, MS2 and MS3 data) i
## References
+ Ellis SR, Paine MRL, Eijkel GB, Pauling JK, Husen P, Jervelund M, Hermansson M, Ejsing CS, Heeren RMA. Automated, Parallel Mass Spectrometry Imaging and Structural Identification of Lipids (2018, under review).
+ Ellis SR, Paine MRL, Eijkel GB, Pauling JK, Husen P, Jervelund M, Hermansson M, Ejsing CS, Heeren RMA. Automated, Parallel Mass Spectrometry Imaging and Structural Identification of Lipids. [Nat Methods. 2018](https://doi.org/10.1038/s41592-018-0010-6).
+ Pauling JK, Hermansson M, Hartler J, Christiansen K, Gallego SF, Peng B, Ahrends R, Ejsing CS. Proposal for a common nomenclature for fragment ions in mass spectra of lipids. [PLoS One. 2017 12(11):e0188394](https://doi.org/10.1371/journal.pone.0188394).
+ Husen P, Tarasov K, Katafiasz M, Sokol E, Vogt J, Baumgart J, Nitsch R, Ekroos K, Ejsing CS. Analysis of lipid experiments (ALEX): a software framework for analysis of high-resolution shotgun lipidomics data. [PLoS One. 2013 8(11):e79736](https://doi.org/10.1371/journal.pone.0079736).
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