Description

Call somatic structural variants with nanomonsv get using tumor/control parse outputs and a reference genome.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

3 ()

0 ()

1 ()

2 ()

3 ()

0 ()

1 ()

2 ()

simple_repeat_bed (file)

Simple repeat BED (bgzipped)

*.{bed.gz}

simple_repeat_bed_index (file)

Index for simple repeat BED

*.{bed.gz.tbi}

control_panel_files (file)

Optional control panel nanomonsv parse outputs in order: insertion, insertion index, deletion, deletion index, rearrangement, rearrangement index, bp_info, bp_info index. The optional control panel prefix can be set with task.ext.args using --control_panel_prefix.

*.{bed.gz,bed.gz.tbi,bedpe.gz,bedpe.gz.tbi}

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

Tools

nanomonsv Documentation

nanomonsv is a software for detecting somatic structural variations from paired (tumor and matched control) cancer genome sequence data.

https://github.com/friend1ws/nanomonsvdoi: 10.1093/nar/gkad526License: GPL v3
Authors