Christina Eimer1, Ashley D Sanders2, Jan O Korbel2, Tobias Marschall3, Peter Ebert3. 1. Center for Bioinformatics Saar, Saarland University, 66123 Saarbrücken, Germany. 2. European Molecular Biology Laboratory (EMBL), Genome Biology Unit, 69117 Heidelberg, Germany. 3. Institute for Medical Biometry and Bioinformatics, Heinrich Heine University, 40225 Düsseldorf, Germany.
Abstract
SUMMARY: Single-cell DNA template strand sequencing (Strand-seq) enables chromosome length haplotype phasing, construction of phased assemblies, mapping sister-chromatid exchange events and structural variant discovery. The initial quality control of potentially thousands of single-cell libraries is still done manually by domain experts. ASHLEYS automates this tedious task, delivers near-expert performance and labels even large data sets in seconds. AVAILABILITY AND IMPLEMENTATION: github.com/friendsofstrandseq/ashleys-qc, MIT license. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
SUMMARY: Single-cell DNA template strand sequencing (Strand-seq) enables chromosome length haplotype phasing, construction of phased assemblies, mapping sister-chromatid exchange events and structural variant discovery. The initial quality control of potentially thousands of single-cell libraries is still done manually by domain experts. ASHLEYS automates this tedious task, delivers near-expert performance and labels even large data sets in seconds. AVAILABILITY AND IMPLEMENTATION: github.com/friendsofstrandseq/ashleys-qc, MIT license. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Authors: Vincent C T Hanlon; Daniel D Chan; Zeid Hamadeh; Yanni Wang; Carl-Adam Mattsson; Diana C J Spierings; Robin J N Coope; Peter M Lansdorp Journal: Cell Rep Methods Date: 2022-01-24