Changes in version 1.15.2 - Possibility to use a maximum of 3 unsupported/‘other’ tools. Changes in version 1.8.0 - Fifth release on bioconductor Changes in version 1.5.3 - Removed citr package from DESCRIPTION Changes in version 1.4.0 - Third release on bioconductor Changes in version 1.3.1 - Added files to fix bugs Changes in version 1.2.0 - Second release on bioconductor Changes in version 1.1.14 - In mergeBSJunctions function: - Since different detection tools can report sligtly different coordinates before grouping the back-spliced junctions, it is now possible to fix the latter using the gtf file. See param fixBSJsWithGTF. Changes in version 1.1.5 - In plotMotifs function: - Before only motifs found in the foreground sequences were reported. Now also motifs found in the background are reported in the output. Changes in version 1.1.4 - In getMotifs function: - Fixed a bug when trimming the BSJ sequences. E.g. by setting width = 6, the BSJ sequences are trimmed so that only 5 nucleotides are left at each side of the BSJ. If width = 7, then 6 nucleotides are left at each side of the BSJ etc. Changes in version 1.1.3 - In plotMotifs function: - Added n param for filtering the motifs. Changes in version 1.1.2 - Improved vignettes - In plotMotifs function: - To avoid infinity as a value for fold change, 1 was added to number of occurences of each motif found in the foreground and background target sequences before the normalization. - Added angle param for the rotation angle of the axis labels. - Added removeNegLog2FC param to remove the RBPs having a negative log2FC. - volcanoPlot function: - Added geneSet param that allows to show only specified host gene names. - In getMotifs function: - Included possibilities to use motifs of RBPs from MEME database Changes in version 1.0.0 - First release on bioconductor