Data processing and data analysis used for Hackflex performance testing Manuscript: Hackflex: low cost Illumina sequencing library construction for high sample counts Scripts for data processing, to be run in order: 001_library_processing.sh filtering and trimming reads; reducing sizes of libraries to obtain equal size libraries 002_library_mapping.sh mapping of reads against reference genome; removal of PCR duplicates; fragment size obtainment 003_library_alfred.sh obtainment of quality stats (GC bias, coverage, read length, etc) Scripts for the data analysis: (needs updating) R version info: (needs updating) platform: x86_64-apple-darwin15.6.0 status: major: 3 minor: 6.1 year: 2019 month: 07 day: 05 svn rev: 76782 language: R version.string: R version 3.6.1 (2019-07-05) nickname: Action of the Toes List of packages: (needs updating) readr , readxl , data.table , tibble (v2.1.3) , openxlsx , splitstackshape , tidyr , tidyverse , dplyr , plyr (v1.$