• VanillaICE

  • Referenced in 6 articles [sw11310]
  • Bioconductor. Hidden Markov Models for characterizing chromosomal alterations in high throughput SNP arrays. Background ... subject’s genome, such as the chromosomal copy numbers and the genotype (heterozygosity/homozygosity). In contrast ... diseases are linked to such chromosomal alterations, SNP chips promise new insights for these diseases ... genomic array data to infer chromosomal alterations, including deletions, amplifications, and regions with loss...
  • rSW-seq

  • Referenced in 3 articles [sw17971]
  • algorithm for detection of copy number alterations in deep sequencing data. Background: Recent advances ... robust and reliable method for screening chromosomal alterations would allow a detailed characterization...
  • SegCorr

  • Referenced in 1 article [sw21050]
  • factors that may significantly alter expression in large chromosomic regions (gene silencing or gene activation...
  • SegAnnDB

  • Referenced in 2 articles [sw19542]
  • copy number profiles characterize regions of chromosome gains, losses and breakpoints in tumor genomes. Although ... models have been proposed to detect these alterations, it is not clear which model...
  • CARAT

  • Referenced in 6 articles [sw35399]
  • samples containing differing numbers of X chromosomes as well as a test set of normal ... assigns a significance score to each alteration as well as generating allele-specific output. When...
  • PGTools

  • Referenced in 1 article [sw31812]
  • peptide databases from RNA-Seq transcripts, identify altered proteins associated with cancer, and visualize genome ... well as international initiatives such as chromosome-centric Human Proteome Project (C-HPP). PGTools...
  • NAG

  • Referenced in 417 articles [sw00610]
  • Produced by experts for use in a variety...
  • R

  • Referenced in 8601 articles [sw00771]
  • R is a language and environment for statistical...
  • oligo

  • Referenced in 9 articles [sw06102]
  • (R) A package to analyze oligonucleotide arrays (expression/SNP/tiling/exon...
  • nag

  • Referenced in 312 articles [sw06239]
  • NAG optimization experts have developed, extensively tested and...
  • BayesDA

  • Referenced in 1137 articles [sw11008]
  • BayesDA: Functions and Datasets for the book ”Bayesian...
  • BRLMM

  • Referenced in 8 articles [sw11309]
  • apt-probeset-genotype is a program for making...
  • SNPchip

  • Referenced in 1 article [sw11311]
  • SNPchip: R classes and methods for SNP array...
  • Affymetrix

  • Referenced in 8 articles [sw14673]
  • Affymetrix GeneChip Operating Software (GCOS). Affymetrix® microarray solutions...
  • dChipSNP

  • Referenced in 6 articles [sw18745]
  • dChipSNP: significance curve and clustering of SNP-array...
  • PLASQ

  • Referenced in 6 articles [sw18746]
  • PLASQ: A generalized linear model-based procedure to...
  • ACE-it

  • Referenced in 4 articles [sw30031]
  • ACE-it: A tool for genome-wide integration...