SRBreak: A Read-Depth and Split-Read Framework to Identify Breakpoints of Different Events Inside Simple Copy-Number Variable Regions

Jit — Tue, 15 May 2018 04:42:11 -0500

SRBreak is a read-depth and split-read package written in R for identifying copy-number variants in next-generation sequencing datasets. Note: SBReak was designed to work for multiple samples. It can work for >= 2 samples, but we suggest that users should use >= 5 samples as in the work tested in our paper.

Address of the bookmark: https://github.com/hoangtn/SRBreak

Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences

Poonam Mahapatra — Mon, 26 Aug 2019 17:55:24 -0500

Miropeats discovers regions of sequence similarity amongst any set of DNA sequences and then presents this similarity information graphically. Sequence similarity searching is a very general tool that forms the basis of many different biological sequence analyses but it is limited by the verbosity of traditional alignment presentation styles. Miropeats enhances the utility of conventional DNA sequence comparisons when looking at long lengths of sequence similarity by summarizing extensive large scale sequence similarities on a single page of graphics. The latest version of Miropeats can be used as a general pairwise alignment program or in its traditional role sorting out a big mess of overlapping or similar regions.

Address of the bookmark: http://www.littlest.co.uk/software/bioinf/old_packages/miropeats/

BOL: Related items

SRBreak: A Read-Depth and Split-Read Framework to Identify Breakpoints of Different Events Inside Simple Copy-Number Variable Regions

Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences