Is it possible to get the assembled contig?

[juberpatel]

Is it possible to get as output the assembled contig against which the realignment is done for each targeted region?

[mozack]

The raw assembled contigs will appear under the "--working" dir in all_contigs.fasta

[mozack]

For ABRA2 , assembled contigs can be output using the --contigs option. Contigs generate via methods other than assembly are not currently output.