diff --git a/README.md b/README.md index 1763f194..fee75a2a 100644 --- a/README.md +++ b/README.md @@ -111,7 +111,7 @@ To demonstrate the functionality, flexibility, and scalability of the MetaboAnal ## Tutorials -For detailed tutorials on how to use MetaboAnalystR 2.0, please refer to the R package vignettes. These vignettes include detailed step-by-step workflows with example data for each of the main MetaboAnalytR 2.0 modules (11), a case-study showcasing the new end-to-end functionality of MetaboAnalystR 2.0, as well as an example that demonstrates the ease of using XCMS and MetaboAnalystR 1.0 for a holisitic metabolomic data analysis (deprecated). +For detailed tutorials on how to use MetaboAnalystR 2.0, please refer to the R package vignettes. These vignettes include detailed step-by-step workflows with example data for each of the main MetaboAnalytR 2.0 modules (11), a case-study showcasing the new end-to-end functionality of MetaboAnalystR 2.0, as well as an example that demonstrates the ease of using XCMS and MetaboAnalystR 1.0 for a holisitic metabolomic data analysis (deprecated). Note, the functions below work only if the R package vignettes were built. Within R: ```R @@ -143,9 +143,9 @@ To inform us of any bugs or requests, please open a new issue or send an email t ## MetaboAnalystR History & Updates -03-05-2019 - Version Update: 2.0.0! - +03-05-2019 - Version Update: 2.0.0! - added function for graphical integration of results from mummichog and fGSEA, added new tutorial with example data from the fecal metabolome of IBD patients -03-03-2019 - Version Update: 1.0.4 - added fGSEA for mummichog, major release coming soon after bug fixes +03-03-2019 - Version Update: 1.0.4 - added support for pathway activity prediction using fGSEA; major release coming soon after bug fixes 02-11-2019 - Version Update: 1.0.3 - updated underlying R code w. changes to MetaboAnalyst 4.53 + updated documentation diff --git a/vignettes/MetaboAnalystR_2_Workflow_From_Raw_Spectra_to_Biological_Insights.Rmd b/vignettes/MetaboAnalystR_2_Workflow_From_Raw_Spectra_to_Biological_Insights.Rmd index 26f93579..11a3108d 100644 --- a/vignettes/MetaboAnalystR_2_Workflow_From_Raw_Spectra_to_Biological_Insights.Rmd +++ b/vignettes/MetaboAnalystR_2_Workflow_From_Raw_Spectra_to_Biological_Insights.Rmd @@ -40,7 +40,7 @@ setwd("~/Desktop/iHMP/") library("MetaboAnalystR") # Import mzML files -rawData <- ImportRawMSData(grpA = "Healthy", numA = 5, grpB = "IBD", numB = 5, +rawData <- ImportRawMSData(grpA = "Healthy", numA = 6, grpB = "IBD", numB = 6, format = "png", dpi = 72, width = 9) ```