WHAT'S NEW June, 2016 RNASeqGUI 1.1.2 was released In the version RNASeqGUI 1.1.2, we present some new features, such as: 1 - 3 sets Venn diagram saves all the intersection gene lists, 2 - GAGE heatmap modified, 3 - Several minor bugs fixed. --------------------------------- April, 2016 RNASeqGUI 1.1.1 was released In the version RNASeqGUI 1.1.1, we present some new features, such as: 1 - Filtering feature added to DAVID interface, 2 - Added dedicated DAVID directory tree in Results folder, 3 - Added install.rnaseqgui.dependencies() function, 4 - Several minor bugs fixed. --------------------------------- November, 2015 RNASeqGUI 1.1.0 was released In the version RNASeqGUI 1.1.0, we present some new features, such as: 1 - New Read Count Interface, 2 - New Data Analysis Interface that provides the possibility to load a design file for all methods (except for BaySeq) and the possibility to save results in a .tsv (tab separated value) format, 3 - New PCA functions in the Data Exploration Interface. Now, you do not need to specify the factors manually, 4 - Several minor bugs fixed. --------------------------------- June, 2015 RNASeqGUI 1.0.0 was released In the version RNASeqGUI 1.0.0, we present some new features, such as: 1 - New Gage Interface with the possibility to have three different types of conversion (from ENSEMBL ids or gene names or gene codes to ENTREZ genes), 2 - A Heatmap function in the Gage Interface, 3 - A Pathway Barplot function in the Gage Interface, 4 - New Utility Interface with Keep Columns function, 5 - New Utility Interface with Round function, 6 - New David Interface for the pathway and Go analysis, 7 - New Heatmap function in the Data Exploration Interface that can be applied to a provided list of genes, 8 - Several minor bugs fixed. -------------------------------- March 11, 2015 RNASeqGUI_0.99.4 was released In the version RNASeqGUI_0.99.4, we present some new features, such as: 1 - Cached Computation was added, 2 - Several minor bugs fixed. --------------------------------------- December 22, 2014 RNASeqGUI_0.99.3 was released In the version RNASeqGUI_0.99.3, we present some new features, such as: 1 - Filtering Interface added inside the PRE-ANALYSIS SECTION, 2 - GENE/SET PATHWAY SECTION that contains Graphite Interface and Gage Interface, 3 - Convert button inside the Utility Interface, 4 - NoiSeqBio function automatically called when the user clicks on the Run NoiSeq button with biological replicates, 5 - New function for Plot all Counts button inside the Data Exploration Interface, 6 - Several bugs fixed. --------------------------------------- July 16, 2014 RNASeqGUI_0.99.2 was released In the version RNASeqGUI_0.99.2, we present some new features, such as: 1 - Reactive Data Exploration via a web browser thanks to ReportingTools package ("Show Results" button for all the methods), 2 - Reproducible Research thanks to knitr package ("Log file" button), 3 - Complex Design Analysis for EdgeR, DESeq and DESeq2, 4 - Utility Interface, 5 - FeatureCounts (a new alternative method included in the "Read Count Interface"), 6 - Venn Diagrams DE 4 sets in the "Result Inspection Interface", 7 - "bplapply" function of BiocParallel was introduced again to speed up the Count Section. --------------------------------------- May 15, 2014 RNASeqGUI_0.99.1 was released In the version RNASeqGUI_0.99.1 1 - We fix a bug present in DESeq and in DESeq2, since up and down regulated genes where swapped 2 - Minor point. In this version, we replaced "bplapply" function of BiocParallel with "lapply" function since with BiocParallel_0.4.1 RNASeqGUI worked fine, but with the latest version (BiocParallel_0.7.0) we found some problems. We are now trying to find out why things have changed. --------------------------------------- March 26, 2014 RNASeqGUI_0.99.0 was released First release of RNASeqGUI