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Title:           quaqc: efficient and quick ATAC-seq quality control and filtering
Subject:         Doi: 10.1093/bioinformatics/btae649 Bioinformatics, 40, 11, 2024 Publication Date: 30/10/2024 Abstract Summary “quaqc” allows for ATAC-seq-specific quality control and read filtering of NGS data with minimal processing time and extremely low memory overhead. An efficient scaling implementation allows for a wide range of use cases, from processing individual samples processed on personal laptops to handling thousands of samples processed in parallel on compute clusters. The helper R package “quaqcr” allows for interactive program execution and exploration of results.Availability and implementation Source code and documentation are freely available for download from https://github.com/bjmt/quaqc and https://github.com/bjmt/quaqcr under the GPLv3 license. “quaqc” is implemented in C and has been tested on both macOS and Linux. The “quaqcr” helper package only requires the R programming language. Fixed versions of the programs and code associated with this manuscript can be found at https://zenodo.org/records/13833437.
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  Checksum: c7d33065
   Type: CRC32
  Checksum: fbbf1a243d4983c00d7731e5d9ffde4d
   Type: MD5
  Checksum: 6e69801cab5a55b3bc6cb6b47681c37027250250
   Type: SHA-1
  Checksum: f21f28309d39d39cbc04a3ca87ca589890c11d576b8e6b662eee3a10d8b433b1
   Type: SHA-256