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RAbHIT: R Antibody Haplotype Inference Tool
- Source :
- Bioinformatics
-
Abstract
- Summary Antibody haplotype inference (chromosomal phasing) may have clinical implications for the identification of genetic predispositions to diseases. Yet, our knowledge of the genomic loci encoding for the variable regions of the antibody is only partial, mostly due to the challenge of aligning short reads from genome sequencing to these highly repetitive loci. A powerful approach to infer the content of these loci relies on analyzing repertoires of rearranged V(D)J sequences. We present here RAbHIT, an R Haplotype Antibody Inference Tool, that implements a novel algorithm to infer V(D)J haplotypes by adapting a Bayesian framework. RAbHIT offers inference of haplotype and gene deletions. It may be applied to sequences from naïve and non-naïve B-cells, sequenced by different library preparation protocols. Availability and implementation RAbHIT is freely available for academic use from comprehensive R archive network (CRAN) (https://cran.r-project.org/web/packages/rabhit/) under CC BY-SA 4.0 license. Supplementary information Supplementary data are available at Bioinformatics online.
- Subjects :
- Statistics and Probability
Inference
Computational biology
Biology
Biochemistry
Antibodies
DNA sequencing
03 medical and health sciences
0302 clinical medicine
Haplotype inference
R haplotype
Molecular Biology
030304 developmental biology
Supplementary data
0303 health sciences
Haplotype
Chromosome Mapping
Bayes Theorem
Genomics
Computer Science Applications
Computational Mathematics
Identification (information)
Haplotypes
Computational Theory and Mathematics
biology.protein
Antibody
Algorithms
Software
030215 immunology
Subjects
Details
- Language :
- English
- ISSN :
- 14602059 and 13674803
- Volume :
- 35
- Issue :
- 22
- Database :
- OpenAIRE
- Journal :
- Bioinformatics
- Accession number :
- edsair.doi.dedup.....c516dbf17a0fe6864b69848b89cbee75
- Full Text :
- https://doi.org/10.1093/bioinformatics/btz481