• SNVer

  • Referenced in 3 articles [sw36884]
  • significance of observed allele frequency against sequencing error. SNVer reports one single overall P-value ... feasible for analysis of whole-exome sequencing data, or even whole-genome sequencing data using...
  • svmod

  • Referenced in 1 article [sw25331]
  • Finding small somatic structural variants in exome sequencing data: a machine learning approach. Genetic variation ... several megabases. Based on recent developments in sequencing technology it has become feasable to elucidate ... person’s genes (i.e. the exome) or even the complete genome. Here, a machine learning ... aims to be directly applicable for exome sequencing data to improve detection of SVs since...
  • ExomeCNV

  • Referenced in 1 article [sw35179]
  • Exome sequencing-based copy-number variation and loss of heterozygosity detection: ExomeCNV. Motivation: The ability ... loss of heterozygosity (LOH) from exome sequencing data extends the utility of this powerful approach ... allele frequencies, from mapped short sequence reads, and we assess both the method’s power ... apply our method to a cancer exome resequencing dataset. As expected, accuracy and resolution...
  • Strelka

  • Referenced in 1 article [sw31866]
  • sample pairs. Motivation: Whole genome and exome sequencing of matched tumor–normal sample pairs...
  • VarSifter

  • Referenced in 1 article [sw17296]
  • VarSifter: Visualizing and analyzing exome-scale sequence variation data on a desktop computer. Summary: VarSifter ... quickly sort, filter, and sift through sequence variation data. A variety of filters ... simplifying visualization and analyses of exome-scale sequence variation data, this program will help bring...
  • SeqEM

  • Referenced in 1 article [sw35196]
  • sample of unrelated individuals with next-generation sequence data, leveraging information from the sample ... also apply SeqEM to exome sequence data in eight related individuals and compare the results...
  • ExomeWalker

  • Referenced in 1 article [sw36887]
  • prioritise a set of candidates in exome sequencing projects that aim to identify novel Mendelian...
  • WEP

  • Referenced in 1 article [sw41456]
  • Results: Our web resource WEP (Whole-Exome sequencing Pipeline web tool) performs a complete...
  • Omics Pipe

  • Referenced in 1 article [sw26801]
  • miRNA-seq, Exome-seq, Whole-Genome sequencing, ChIP-seq analyses and automatic processing of data...
  • VarScan

  • Referenced in 8 articles [sw27471]
  • variants (SNPs and indels) in next-generation sequencing data. The new release (VarScan ... comparing the read counts. Exome-based copy number alteration detection. You can also use VarScan ... When tumor and normal undergo capture and sequencing with identical protocols, this read depth comparison...
  • FFBSKAT

  • Referenced in 2 articles [sw23136]
  • existing software for family-based sequence kernel association testing, namely, ASKAT and famSKAT, using ... easy-to-use method to perform whole-exome kernel machine-based regression association analysis...
  • pBRIT

  • Referenced in 0 articles [sw34143]
  • MatrixDB, DIP, IntAct, MINT, PDB, HPRD), Protein sequence similarities (BLAST), Mouse Phenotype Ontologies (MPO), Human ... available as web-interface for single exome prioritization...
  • Sam2bam

  • Referenced in 0 articles [sw16315]
  • significantly speedup pre-processing for next-generation sequencing data. The sam2bam is especially efficient ... about one minute for a whole-exome data set on a 16-core single-node ... could reduce the runtime for whole-genome sequencing data from about 20 hours to about...
  • R

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

  • Referenced in 187 articles [sw03059]
  • Parallel network simulations with NEURON. The NEURON simulation...
  • Bioconductor

  • Referenced in 320 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...
  • Rfam

  • Referenced in 33 articles [sw04637]
  • The Rfam database is a collection of RNA...
  • Rnamotif

  • Referenced in 10 articles [sw04638]
  • The rnamotif program [1] searches a database for...
  • LIBSVM

  • Referenced in 1184 articles [sw04879]
  • LIBSVM is a library for Support Vector Machines...
  • WEKA

  • Referenced in 304 articles [sw06435]
  • WEKA: Waikato Environment for Knowledge Analysis. WEKA is...