TASR 1.6 (Jan 01, 2016)
Initial Bloom filter implementation. Better prefix-tree handling. Whole pair recruitment leading to longer, more specific contigs.
For additional information about this project, please visit the overview page .
Available downloads
Release Notes
| State | Final release |
|---|---|
| License | GPL |
| Release Manager | Rene Warren |
1) Bloom filter functionality to exclude k-mers from your sequence target space (TASR-Bloom). This could be useful for removing repeats and, for example, unwanted ERV elements.
TASR and TASR-Bloom:
2) 4-base encoding of the first 16 bases of each read while populating a 4-nodes (16/4) prefix tree.
3) The new (and required) coverage depth threshold -w option, gives users more control over the assembly, focusing on higher-depth contigs and ignoring short, low-depth contigs comprised of NGS reads having errors, contaminating reads or any other (perhaps unwanted) sequences.
4) Improvements to read recruitment from sorted-by-name bam files, recruiting whole read pairs when at least one read has a target seed k-mer match. This has the potential to extend the reconstructed contigs by 2X the library fragment size (upstream and downstream) of the target sequence.
