• RSEM

  • Referenced in 12 articles [sw17160]
  • isoform abundances from single-end or paired-end RNA-Seq data. RSEM outputs abundance estimates ... show that accurate gene-level abundance estimates are best obtained with large numbers of short ... other hand, estimates of the relative frequencies of isoforms within single genes may be improved ... user-friendly software tool for quantifying transcript abundances from RNA-Seq data. As it does...
  • rSeqDiff

  • Referenced in 2 articles [sw27647]
  • that our approach provides accurate estimates of isoform abundances and biological meaningful rankings of differentially...
  • DRIMSeq

  • Referenced in 1 article [sw25781]
  • information about overall gene abundance and by joint modeling of isoform expression ... this approach is to get robust estimates of model parameters with limited numbers of replicates...
  • R

  • Referenced in 10196 articles [sw00771]
  • R is a language and environment for statistical...
  • Bioconductor

  • Referenced in 328 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...
  • edgeR

  • Referenced in 53 articles [sw06936]
  • edgeR: a Bioconductor package for differential expression analysis...
  • R-INLA

  • Referenced in 89 articles [sw08014]
  • Extending integrated nested Laplace approximation to a class...
  • casper

  • Referenced in 5 articles [sw09370]
  • Quantifying alternative splicing from paired-end RNA-sequencing...
  • SeqMap

  • Referenced in 6 articles [sw17145]
  • SeqMap: mapping massive amount of oligonucleotides to the...
  • TopHat

  • Referenced in 23 articles [sw17157]
  • TopHat2: accurate alignment of transcriptomes in the presence...
  • GENCODE

  • Referenced in 2 articles [sw22999]
  • GENCODE: the reference human genome annotation for The...
  • WemIQ

  • Referenced in 1 article [sw34552]
  • WemIQ: an accurate and robust isoform quantification method...
  • MITIE

  • Referenced in 1 article [sw34895]
  • MITIE: Simultaneous RNA-Seq-based transcript identification and...
  • CLIIQ

  • Referenced in 2 articles [sw34969]
  • CLIIQ: Accurate Comparative Detection and Quantification of Expressed...