BRASS

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UID: 11431

Author(s): Raine, Keiran, Bhosle, Shriram, Li, Yilong, Marshall, John, Dawson, Eric T., Menzies, Andy

Description: Description from GitHub:

"Breakpoints via assembly - Identifies breaks and attempts to assemble rearrangements in whole genome sequencing data.

BRASS analyses one or more related BAM files of paired-end sequencing to determine potential rearrangement breakpoints.

There are several stages the main component being:

Collect read-pairs where both ends map but NOT marked as properly-paired.
Perform grouping based on mapped locations
Filter
Run assembly
Annotate with GRASS"

Subject(s)

Access via GitHub
Access Restrictions: Free to All
Access Instructions: Available for download via GitHub under a GNU Affero General Public License
Associated Publications: Maciejowski J, Chatzipli A, Dananberg A, Chu K, Toufektchan E, Klimczak L, Gordenin D, Campbell P, de Lange T. APOBEC3-dependent kataegis and TREX1-driven chromothripsis during telomere crisis. Nature Genetics. 2020; 52(9):884-890.
Software Used: C
general-purpose programming language

R
a free software environment for statistical computing and graphics.
Dataset Format(s): TAR, gzip, TXT, YML, MD, CPP, SH
Dataset Size: 19.5 MB

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