doi: 10.1093/bioinformatics/btg316.
Libsequence: a C++ class library for evolutionary genetic analysis
Affiliations
- PMID: 14630667
- DOI: 10.1093/bioinformatics/btg316
Item in Clipboard
Libsequence: a C++ class library for evolutionary genetic analysis
Bioinformatics.
.
Abstract
A C++ class library is available to facilitate the implementation of software for genomics and sequence polymorphism analysis. The library implements methods for data manipulation and the calculation of several statistics commonly used to analyze SNP data. The object-oriented design of the library is intended to be extensible, allowing users to design custom classes for their own needs. In addition, routines are provided to process samples generated by a widely used coalescent simulation.
Availability: The source code (in C++) is available from http://www.molpopgen.org
Similar articles
-
TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders.Bioinformatics. 2004 Nov 1;20(16):2878-9. doi: 10.1093/bioinformatics/bth315. Epub 2004 May 14. Bioinformatics. 2004. PMID: 15145805
-
SatDNA Analyzer: a computing tool for satellite-DNA evolutionary analysis.Bioinformatics. 2007 Mar 15;23(6):767-8. doi: 10.1093/bioinformatics/btm005. Epub 2007 Jan 22. Bioinformatics. 2007. PMID: 17242030
-
Open source clustering software.Bioinformatics. 2004 Jun 12;20(9):1453-4. doi: 10.1093/bioinformatics/bth078. Epub 2004 Feb 10. Bioinformatics. 2004. PMID: 14871861
-
Bioinformatics approaches and resources for single nucleotide polymorphism functional analysis.Brief Bioinform. 2005 Mar;6(1):44-56. doi: 10.1093/bib/6.1.44. Brief Bioinform. 2005. PMID: 15826356 Review.
-
Genome resequencing and genetic variation.Nat Biotechnol. 2008 Jan;26(1):65-6. doi: 10.1038/nbt0108-65. Nat Biotechnol. 2008. PMID: 18183021 Review. No abstract available.
Cited by
-
The Effects of Mutation and Recombination Rate Heterogeneity on the Inference of Demography and the Distribution of Fitness Effects.Genome Biol Evol. 2024 Feb 1;16(2):evae004. doi: 10.1093/gbe/evae004. Genome Biol Evol. 2024. PMID: 38207127 Free PMC article.
-
The effects of mutation and recombination rate heterogeneity on the inference of demography and the distribution of fitness effects.bioRxiv [Preprint]. 2023 Nov 13:2023.11.11.566703. doi: 10.1101/2023.11.11.566703. bioRxiv. 2023. Update in: Genome Biol Evol. 2024 Feb 1;16(2):evae004. doi: 10.1093/gbe/evae004. PMID: 38014252 Free PMC article. Updated. Preprint.
-
Population Genomics of the Mostly Thelytokous Diplolepis rosae (Linnaeus, 1758) (Hymenoptera: Cynipidae) Reveals Population-specific Selection for Sex.Genome Biol Evol. 2023 Oct 6;15(10):evad185. doi: 10.1093/gbe/evad185. Genome Biol Evol. 2023. PMID: 37831420 Free PMC article.
-
Domestication in dry-cured meat Penicillium fungi: Convergent specific phenotypes and horizontal gene transfers without strong genetic subdivision.Evol Appl. 2023 Sep 8;16(9):1637-1660. doi: 10.1111/eva.13591. eCollection 2023 Sep. Evol Appl. 2023. PMID: 37752962 Free PMC article.
-
Evaluating power to detect recurrent selective sweeps under increasingly realistic evolutionary null models.bioRxiv [Preprint]. 2023 Jun 15:2023.06.15.545166. doi: 10.1101/2023.06.15.545166. bioRxiv. 2023. Update in: Evolution. 2023 Oct 3;77(10):2113-2127. doi: 10.1093/evolut/qpad120. PMID: 37398347 Free PMC article. Updated. Preprint.
MeSH terms
LinkOut - more resources
Full Text Sources
