ArticleBioinformatics advances2025
FastGA: fast genome alignment.
Article in Bioinformatics advances, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
What it found
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Who cites it
4 citing papers in PubMed.
- The Vertebrate Genomes Project Phase I: A global reference genome resource.bioRxiv : the preprint server for biology · 2026Article
- Accelerating minimap2 for whole-genome alignment.Bioinformatics (Oxford, England) · 2026Article
- Adaptive Tracepoints for Pangenome Alignment Compression.bioRxiv : the preprint server for biology · 2026Article
- The complete genome of a songbird.bioRxiv : the preprint server for biology · 2025Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Motivation: FastGA finds alignments between two genome sequences more than an order of magnitude faster than previous methods that have comparable sensitivity. Its speed is due to (i) a fully Results: For example, two 2 Gbp bat genomes are compared in 2.1 min with eight threads on an Apple laptop using 5.7 GB of memory and producing 1.05 million alignments covering 60% of each genome. Our ALN format file occupies 66 MB and in just 6 s can be converted to a standard 1.03 GB PAF file. Availability and implementation: FastGA is freely available at GitHub: http://www.github.com/thegenemyers/FASTGA along with utilities for viewing inputs, intermediates, and outputs and transforming ALN files to PSL or PAF with or without CIGAR strings and common formats. There is also a utility to chain FastGA's alignments and display them in a dot-plot view in PostScript files.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.