Source code and example dataset for LipidMS v3.0.3: a commercially available pooled human serum sample was analyzed in positive and negative detection modes and using MS1, DIA and DDA approaches. The obtained datasets were processed using LipidMS v3.0, MS-DIAL v4.80 or a combination of data pre-processing in XCMS v3.16 and lipid annotation in LipidMS v3.0. This repository contains: - Raw data for positive and negative polarities using MS scan, DIA and DDA acquisition modes. - R scripts for processing with LipidMS v3.0.3 and XCMS v3.16.1 and parameters used for processing with MS-DIAL v4.80. - Source code for LipidMS v3.0.3. - Results obtained for the 3 different softwares employed. - Tutorials for LipidMS R package and online application. - Human pooled serum analysis Raw data for positive and negative polarities using MS scan, DIA and DDA acquisition modes for a human pooled serum sample with or without the addition of 68 lipid standars Results for the data processing and annotation of the lipid standards using LipidMS 3.0, XCMS 3.16 and MS-DIAL 4.80 Results for the manual curation of the total lipid annotations provided by both LipidMS 3.0 and MS-DIAL 4.80