bionic (1) Assemblytics.1.gz

Provided by: assemblytics_0~20170131+ds-2_all bug

NAME
       Assemblytics - detect and analyze structural variants from a genome assembly


SYNOPSIS
       Assemblytics delta output_prefix unique_length_required min_size max_size


DESCRIPTION
       Assemblytics  incorporates  a  unique  anchor  filtering  approach  to  increase robustness to repetitive
       elements, and  identifies  six  classes  of  variants  based  on  their  distinct  alignment  signatures.
       Assemblytics can be applied both to comparing aberrant genomes, such as human cancers, to a reference, or
       to identify differences between related species.


EXAMPLES
       Generate the delta file with nucmer(1):

           nucmer -maxmatch -l 100 -c 500 REFERENCE.fa ASSEMBLY.fa -prefix OUT

       Then run the program:

           Assemblytics OUT.delta OUT 10000 50 10000


CITATION
       Maria Nattestad, Michael C. Schatz; Assemblytics: a web analytics tool for the detection of variants from
       an    assembly,   Bioinformatics,   Volume   32,   Issue   19,   1   October   2016,   Pages   3021–3023,
       https://doi.org/10.1093/bioinformatics/btw369


SEE ALSO
       nucmer(1), http://assemblytics.com

                                                February 11 2018                                 Assemblytics(1)