Ragnar Groot Koerkamp

PhD Computational Biology @ BMI ETH Zurich

Arxiv

Pages

Posts

September 23, 2022 Speeding up A*: computational volumes and pre-pruning
August 17, 2022 Linear memory WFA?
August 16, 2022 Transforming match bonus into cost
August 1, 2022 Diamond optimisation for diagonal transition
April 17, 2022 Variations on the WFA recursion
April 1, 2022 A review of exact global pairwise alignment
October 20, 2021 Spaced K-mer Seeded Distance
October 19, 2021 Open Science

Notes

Shorter notes, thoughts, and paper summaries. Not as curated as posts.

September 28, 2022 Competitive Programming Lecture
September 26, 2022 Reducing A* memory usage using fronts
September 22, 2022 Revised Oxford Bioinformatics latex template
August 6, 2022 Paper styleguide
July 28, 2022 Bidirectional A*
July 11, 2022 The BiWFA meeting condition
June 12, 2022 A* variants
June 12, 2022 IGGSY 22 Slides
April 28, 2022 Benchmark attention points
April 28, 2022 Motivation
April 24, 2022 Proof sketch for linear time seed heuristic alignment
December 11, 2021 Pruning for A* heuristics
November 12, 2021 AStarix
November 12, 2021 Neighbor joining
October 28, 2021 UPGMA
October 22, 2021 RTFE
October 22, 2021 1st law of Procrastination
October 22, 2021 Data should be reviewed
October 14, 2021 Hugo and ox-hugo
October 13, 2021 Hello, World!