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OD-seq (bioconductor)

OD-seq (bioconductor)

OD-seq is a software program for detecting outliers in multiple sequence alignments (MSA). It works by finding sequences with an inconsistent average distance to sequences present in the multiple alignment. Requirement: R >= 3.2.3.


Sequence analysis


  • Operation: Sequence comparison; Multiple sequence alignment; validation
  • Input: FASTA
  • Output: -
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Microsoft Windows; Mac OS X 10.11 (El Capitan)
  • License: MIT + file LICENSE
  • Cost: Free
  • Version name: 1.12.0
  • Maturity: Mature
  • Credit: -
  • Contact: jose _at_
  • Collection: BioConductor


Jehl P, Sievers F, Higgins DG "OD-seq: outlier detection in multiple sequence alignments" BMC Bioinformatics. 2015 Aug 25;16:269
PMID: 26303676
PMCID: PMC4548304

Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J1, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M "Orchestrating high-throughput genomic analysis with Bioconductor." Nat Methods. 2015 Feb;12(2):115-21.
PMID: 25633503
PMCID: PMC4509590

Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. "Bioconductor: open software development for computational biology and bioinformatics." Genome Biol. 2004;5(10):R80. Epub 2004 Sep 15.
PMID: 15461798
PMCID: PMC545600

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