I have followed an RNA-seq analysis in galaxy and with the resulting SQLite database, I am trying to generate figures. After I loaded my SQlite data from galaxy into the working directory I set for R, I used the following trunk of codes in R (R-3.4.4);
directory <- ("./specdata/")
cuff_data <- readCufflinks ("C:/Users/dkilic/Desktop/Using_R/Analyse_RNA_seq_data_from_public_repository/Manually_downloaded_SRA_files/data_from_galaxy")
and I got this;
CuffSet instance with:
Name of my sqlite file is "mycobacterium_macrophage_infection". What do you think is the problem?