## ctTransform

Figure 4.1: CTTransform reads several CT-file formats (ct; RnaViz ct and Mac ct), and generates a so called "bracket-dot-bracket'' format that typically is used as input for other tools like RNAforester, RNAmovie or MARNA.

The input of ctTransform is a single `.ct-file` typically obtained by RNAStructure [2]. The output in the lower window is a so called bracket-dot-bracket format which can be used as input for MARNA [3] or RNAForester [4]. For convenience reasons the hyperlinks to these tools are given to the right of the output window (see Fig. 4.1). For RNAMovie [5] it is important to have also suboptimal structures at hand. Therefore ctTransform allows also to load multiple ct-files to end up with multiple optimal and suboptimal structures, which could directly be put into RNAMovie (by copy & paste). In the screenshot (4.2) you see an example in which a multiple ct-file from several sequences was loaded. This means you can load different multiple ct-files at once.