• GMAP

  • Referenced in 3 articles [sw17275]
  • GMAP: a genomic mapping and alignment program for mRNA and EST sequences. Motivation: We introduce ... gmap, a standalone program for mapping and aligning cDNA sequences to a genome. The program ... mutations at a 1 and 3% rate, gmap identified all splice sites accurately in over ... large set of human expressed sequence tags, gmap provided higher-quality alignments more often than...
  • GMap

  • Referenced in 1 article [sw38925]
  • GMap: Java implementation of the Generalized Maps concept. The native Java 8 package de.hzdr.jgm.cgeo.gmap...
  • GSNAP

  • Referenced in 1 article [sw17306]
  • GMAP and GSNAP for Genomic Sequence Alignment: Enhancements to Speed, Accuracy, and Functionality. The programs ... GMAP and GSNAP, for aligning RNA-Seq and DNA-Seq datasets to genomes, have evolved...
  • gmapR

  • Referenced in 1 article [sw38445]
  • interface to the GMAP/GSNAP/GSTRUCT suite. GSNAP and GMAP are a pair of tools to align ... package provides convenience methods to work with GMAP and GSNAP from within R. In addition...
  • GeneHug-GEPIS

  • Referenced in 1 article [sw17310]
  • their precise genomic locations as determined by GMAP. This genome-based approach reduces incorrect matches...
  • CGAL

  • Referenced in 381 articles [sw00118]
  • The goal of the CGAL Open Source Project...
  • CLIFFORD

  • Referenced in 82 articles [sw00131]
  • CLIFFORD performs various computations in Grass mann and...
  • R

  • Referenced in 9188 articles [sw00771]
  • R is a language and environment for statistical...
  • STAR

  • Referenced in 14 articles [sw02515]
  • STAR: ultrafast universal RNA-seq aligner. Motivation: Accurate...
  • Bioconductor

  • Referenced in 312 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...
  • Stony Brook

  • Referenced in 87 articles [sw05040]
  • The Stony Brook Algorithm Repository mainly for combinatorial...
  • oligo

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

  • Referenced in 299 articles [sw06435]
  • WEKA: Waikato Environment for Knowledge Analysis. WEKA is...
  • edgeR

  • Referenced in 52 articles [sw06936]
  • edgeR: a Bioconductor package for differential expression analysis...
  • RankProd

  • Referenced in 6 articles [sw07961]
  • RankProd: Rank Product method for identifying differentially expressed...
  • Soap

  • Referenced in 38 articles [sw08915]
  • SOAP: short oligonucleotide alignment program. We have developed...
  • Sweave

  • Referenced in 44 articles [sw10621]
  • Sweave is a tool that allows to embed...
  • knitr

  • Referenced in 59 articles [sw11224]
  • knitr: A General-Purpose Package for Dynamic Report...
  • snpStats

  • Referenced in 7 articles [sw11396]
  • snpStats: SnpMatrix and XSnpMatrix classes and methods. Bioconductor...
  • CGoGN

  • Referenced in 4 articles [sw11875]
  • CGoGN: n-dimensional Meshes with Combinatorial Maps. Many...