changelog version 1.11.5 - Removed PDF from vignettes directory version 1.11.5 - Added default *.html version 1.11.4 - Added systemPipeR vignettes (*.pdf) version 1.11.3 - Added systemPipeR vignettes version 1.11.2 - Updated systemPipeRdata vignette version 1.11.1 - Updated 'genWorkenvir' function and help file (Added new argument allowing to download a specific template file/version) - Makefile update (support for .Rmd) - Removed old .tmpl files and added new batchtools files - Bibtex update (in the workflows and systemPipeRdata vignette) - Updated all the vignettes in the workflow (removed old .Rnw templates) - Removed all the .pdf figures in the workflows subdirecty - Updated systemPipeRdata vignette version 1.9.1 - Kallisto *.param added version 1.5.1 - Switched all vignettes to R markdown (*.Rmd) version 1.3.7 - 1.5.0 - various updates version 1.3.6 - Support for SLURM - R markdown template for RNA-Seq version 1.3.5 - added trim_galore.param version 1.3.4 - Fixed path problem for Windows version 1.3.3 - Started to change workflow scripts to R markdown with support to render to both HTML or PDF. So far this has been done only for RIBO-Seq workflow. Others will be added later. - Added argument to include bam files in results directory version 1.1.1 - RIBO-Seq vignette update version 0.99.1 - initial package commit