Search results

Page title matches

• SNP-sites
  |{{#vardefine:app|snp-sites}} |{{#vardefine:url|https://github.com/sanger-pathogens/snp-sites}}
  3 KB (334 words) - 12:56, 15 August 2022
• SNP-Pipeline
  |{{#vardefine:app|snp-pipeline}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/snp-pipeline}}
  3 KB (306 words) - 17:00, 10 June 2022

Page text matches

• SNP-Pipeline
  |{{#vardefine:app|snp-pipeline}} |{{#vardefine:url|https://github.com/CFSAN-Biostatistics/snp-pipeline}}
  3 KB (306 words) - 17:00, 10 June 2022
• SNPhylo
  ...peline, user can construct a phylogenetic tree from a file containing huge SNP data. ...H. (2014). SNPhylo: a pipeline to construct a phylogenetic tree from huge SNP data. BMC Genomics, 15(1).
  3 KB (340 words) - 17:48, 10 June 2022
• SNP-sites
  |{{#vardefine:app|snp-sites}} |{{#vardefine:url|https://github.com/sanger-pathogens/snp-sites}}
  3 KB (334 words) - 12:56, 15 August 2022
• Ksnp
  Gardner, S.N., T. Slezak, and B.G. Hall. 2015. kSNP3.0: SNP detection and kSNP v2 software for alignment-free SNP discovery and phylogenetics of hundreds
  3 KB (327 words) - 12:56, 15 August 2022
• PennCNV
  ...appropriate preparation of file format, it can also handle other types of SNP arrays and oligonucleotide arrays. ...amples. It differs form segmentation-based algorithm in that it considered SNP allelic ratio distribution as well as other factors, in addition to signal
  4 KB (474 words) - 21:23, 6 December 2019
• GSNP
  ...ucleotide polymorphism (SNP) is the most common form of genetic variation. SNP detection is to find a new polymorphism site and the known polymorphism all ...data and errors of alignment and experiment to use a Bayesian model based SNP detection algorithm for calculation of quality score of each base. These qu
  3 KB (459 words) - 17:27, 15 August 2022
• SNPsplit
  ...SAM/ BAM format and determine the allelic origin of reads that cover known SNP positions. ...Psplit: Allele-specific splitting of alignments between genomes with known SNP genotypes]
  2 KB (282 words) - 20:38, 27 May 2022
• FastStructure
  A variational framework for inferring population structure from SNP genotype data. ...ard. fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets , (Genetics) June 2014 197:573-589 ([http://rajanil.github.io/fas
  3 KB (297 words) - 18:54, 12 August 2022
• GATK
  ...things like a depth of coverage analyzers, a quality score recalibrator, a SNP/indel caller and a local realigner. ...evelopment library that underlies tools for common analysis problems (like SNP calling) as well as enabling exploratory research on NGS data.
  4 KB (540 words) - 16:53, 15 August 2022
• SNPGenie
  ...and can be combined with upstream applications such as maximum-likelihood SNP calling techniques (e.g., see Lynch et al. 2014). For additional background
  3 KB (423 words) - 18:41, 1 June 2022
• Fastsimcoal
  Different markers, such as DNA sequences, SNP, STR (microsatellite) or multi-locus allelic data can be generated under a ...sa, V.C., and M. Foll (2013) Robust demographic inference from genomic and SNP data. PLOS Genetics, 9(10):e1003905.]
  4 KB (481 words) - 15:25, 15 August 2022
• Snippy
  Rapid haploid variant calling and core SNP phylogeny
  2 KB (237 words) - 14:37, 10 June 2022
• SNAPE-pooled
  ...s probability is high enough, then you have a segregating position, a.k.a. SNP.
  2 KB (270 words) - 12:56, 15 August 2022
• FGTPartitioner
  ...er: Parsimonious delimitation of ancestry breakpoints in large genome-wide SNP datasets. Journal of Open Source Software, 5(46), 2030, https://doi.org/10.
  2 KB (266 words) - 19:05, 28 June 2023
• MAGMA-GWAS
  ...data. It can be used to analyse both raw genotype data as well as summary SNP p-values from a previous GWAS or meta-analysis.
  2 KB (273 words) - 19:35, 23 February 2021
• PhaME
  ...haME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to construct a phylogenetic tree. Provides evol
  2 KB (287 words) - 14:18, 9 March 2020
• BOLT-LMM
  ...OLT-REML algorithm for variance components analysis (i.e., partitioning of SNP-heritability and estimation of genetic correlations).
  2 KB (289 words) - 16:24, 2 January 2020
• RAiSD
  ...previously released tools (SweeD and OmegaPlus), RAiSD scans whole-genome SNP data based on a composite evaluation scheme that captures multiple sweep si
  2 KB (292 words) - 17:38, 14 July 2020
• HapCompass
  ...d by the sequencing reads and viewed as supporting evidence of co-occuring SNP alleles in a haplotype.
  2 KB (287 words) - 18:13, 15 August 2022
• Parsnp
  ...p is a command-line-tool for efficient microbial core genome alignment and SNP detection. Parsnp was designed to work in tandem with Gingr, a flexible pla
  3 KB (297 words) - 21:22, 6 December 2019

View (previous 20 | next 20) (20 | 50 | 100 | 250 | 500)