• ReFHap

  • Referenced in 3 articles [sw35232]
  • reliable and fast algorithm for single individual haplotyping. Full human genomic sequences have been published ... individuals. Most of them are a mixed consensus of the two real haplotypes because ... chromosome through bioinformatics methods such as single individual haplotyping. Full haploid sequences provide a complete ... present a novel problem formulation for single individual haplotyping. We start by assigning a score...
  • SpeedHap

  • Referenced in 2 articles [sw35353]
  • accurate heuristic for the single individual SNP haplotyping problem with many gaps, high reading error ... haplotype reconstruction for (portions of) a pair of homologous human chromosomes from a single individual...
  • ReHap

  • Referenced in 1 article [sw35233]
  • Haplotype Assembly Problem from Shotgun Sequencing Data. Single nucleotide polymorphism (SNP) is the most common ... SNPs present in a chromosome (called the haplotype) is of interest in a wide area ... biomedicine. Personalized haplotyping of (portions of/all) the chromosomes of individuals is one of the most ... assembly problem, (also known as the single individual haplotyping problem), which is the problem...
  • snp.plotter

  • Referenced in 2 articles [sw30540]
  • plots of p-values using single SNP and/or haplotype data. Main features of the package ... created using global and/or individual haplotype p-values along with single SNP p-values. Images...
  • PedGenie

  • Referenced in 4 articles [sw35514]
  • individuals that can be applied to any test statistic, including transmission disequilibrium statistics. Single locus ... time, composite genotype tests, and haplotype analyses may all be performed. We illustrate the validity...
  • clusterhap

  • Referenced in 0 articles [sw15285]
  • Genotypes in Haplotypes. One haplotype is a combination of SNP (Single Nucleotide Polymorphisms) within ... Quantitative Trait Loci). clusterhap groups together all individuals of a population with the same haplotype...
  • HapBlock

  • Referenced in 5 articles [sw26434]
  • possible to select a set of single nucleotide polymorphism (SNPs; tag SNPs) for genome-wide ... SNPs. Compared to other programs for haplotype block partitioning and tag SNP selection, our program ... SNPs. Second, both haplotype data and genotype data from unrelated individuals and/or from general pedigrees...
  • GemSIM

  • Referenced in 1 article [sw34550]
  • next-generation sequencing simulator capable of generating single or paired-end reads for any sequencing ... context based error models to realistically emulate individual sequencing runs and/or technologies. Empirical fragment length ... drawn from one or more genomes or haplotype sets, facilitating simulation of deep sequencing, metagenomic...
  • PyPop

  • Referenced in 1 article [sw00746]
  • Software to analyze multi-locus genotype data for...
  • R

  • Referenced in 9810 articles [sw00771]
  • R is a language and environment for statistical...
  • UBCSAT

  • Referenced in 40 articles [sw02614]
  • UBCSAT: An implementation and experimentation environment for SLS...
  • GATK

  • Referenced in 17 articles [sw12019]
  • The genome analysis toolkit: a MapReduce framework for...
  • Wenxiang

  • Referenced in 15 articles [sw16645]
  • Wenxiang: a web-server for drawing wenxiang diagrams...
  • iRSpot-TNCPseAAC

  • Referenced in 31 articles [sw22412]
  • iRSpot-TNCPseAAC: Identify Recombination Spots with Trinucleotide Composition...
  • iRSpot-PseDNC

  • Referenced in 65 articles [sw22437]
  • iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide...
  • iSNO-AAPair

  • Referenced in 24 articles [sw22447]
  • iSNO-AAPair: incorporating amino acid pairwise coupling into...