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  • LncmiRSRN
  • Referenced in 1 article [sw34139]
  • LncmiRSRN: identification and analysis of long non-coding RNA related miRNA sponge regulatory network...

  • LncFinder
  • Referenced in 0 articles [sw18819]
  • package LncFinder. LncFinder: Long Non-Coding RNA Identification Based on Features of Sequence, EIIP ... predicting sequences are mRNAs or long non-coding RNAs. Default models are trained on human...

  • LncPath
  • Referenced in 0 articles [sw15466]
  • regulated by the interested lncRNA(long non-coding RNA) sets based on a lncRNA-mRNA...

  • MAP-RSeq
  • Referenced in 1 article [sw34369]
  • single nucleotide variants (SNVs). By efficiently analyzing RNA-Seq data, we can query and obtain ... splice sites, long non-coding and circular RNAs, SNVs, etc. Most RNA-Seq bioinformatics tools...

  • Segmentor3IsBack
  • Referenced in 9 articles [sw21077]
  • important issue in biology which has long been addressed with gene prediction methods and manual ... approach to the domain: the segmentation of RNA-Seq data to determine gene boundaries. Because ... segments, which can be associated to coding or non-coding regions of the genome, using...

  • PhyloCSF
  • Referenced in 1 article [sw11719]
  • long non-coding RNAs, often initially recognized by their lack of protein coding potential rather ... than conserved RNA secondary structures. Availability and Implementation: The Objective Caml source code and executables...

  • R
  • Referenced in 9969 articles [sw00771]
  • R is a language and environment for statistical...

  • Graphviz
  • Referenced in 90 articles [sw01283]
  • Graphviz is open source graph visualization software. Graph...

  • Bioconductor
  • Referenced in 319 articles [sw04205]
  • Bioconductor provides tools for the analysis and comprehension...

  • gplots
  • Referenced in 7 articles [sw04555]
  • gplots: Various R Programming Tools for Plotting Data...

  • PLINK
  • Referenced in 66 articles [sw04581]
  • PLINK is a free, open-source whole genome...

  • 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...

  • gcrma
  • Referenced in 97 articles [sw06104]
  • Bioconductor/R package gcrma: Background Adjustment Using Sequence Information...

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

  • igraph
  • Referenced in 209 articles [sw07066]
  • igraph is a software package for complex network...

  • WGCNA
  • Referenced in 26 articles [sw07123]
  • R package WGCNA: Weighted Correlation Network Analysis. Functions...

  • BoolNet
  • Referenced in 18 articles [sw07365]
  • BoolNet: Generation, reconstruction, simulation and analysis of synchronous...

  • MAFFT
  • Referenced in 46 articles [sw08304]
  • MAFFT: Multiple alignment program for amino acid or...

  • Cytoscape
  • Referenced in 80 articles [sw09080]
  • Cytoscape: A Software Environment for Integrated Models of...