ProDerAl: Reference position dependent alignment

Benjamin Crysup, Bruce Budowle, August E. Woerner

Research output: Contribution to journalArticlepeer-review

2 Scopus citations


Motivation: Current read-mapping software uses a singular specification of alignment parameters with respect to the reference. In the presence of varying reference structures (such as the repetitive regions of the human genome), alignments can be improved if those parameters are allowed vary. Results: To that end, the C++ program ProDerAl was written to refine previously generated alignments using varying parameters for these problematic regions. Synthetic benchmarks show that this realignment can result in an order of magnitude fewer misaligned bases.

Original languageEnglish
Pages (from-to)2479-2480
Number of pages2
Issue number16
StatePublished - 15 Aug 2021


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