NEWS

circRNAprofiler 1.19.0

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

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.

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.

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.