Convert to Tracks

When working with tracks, information from standard sequences and mappings are split into specialized tracks with sequence, annotations and reads. This tool creates a number of tracks based on the input sequences:

        Toolbox | Track Tools (Image track_tools) | Track Conversion (Image track_conversion_folder_closed_16_h_p) | Convert to Tracks

The following kinds of data can be converted to tracks: nucleotide sequences (Image sequence_dna), sequence lists (Image dnalist_16_h_p) and read mappings (Image contig)/ (Image multicontig). Select the input and click Next to specify which tracks should be created (see figure 23.17).

Image convert_to_tracks_step2
Figure 23.17: Converting data to tracks.

For sequences and sequence lists, you can Create a sequence track (for mappings, this will be the reference sequence) and a number of Annotation tracks. For each annotation type selected, a track will be created. For mappings, a Reads track can be created as well.

At the bottom of the dialog, there is an option to sort sequences by name. This is useful for example to order chromosomes in the menus etc (chr1, chr2, etc). Alphanumerical sorting is used to ensure that the part of the name consisting of numbers is sorted numerically (to avoid e.g. chr10 getting in front of chr2). When working with de novo assemblies with huge numbers of contigs, this option will require additional memory and computation time.