ClineHelpR v1.1 – Genomic Cline Outlier Detection and Visualization

ClineHelpR v1.1

:: DESCRIPTION

ClineHelpR is an R-package for visualizing genomic clines and detecting outlier loci using output generated by two popular software packages, bgc and Introgress

::DEVELOPER

Bradley Martin

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux / MacOsX
  • R

:: DOWNLOAD

ClineHelpR

:: MORE INFORMATION

Citation

Martin BT, Chafin TK, Douglas MR, Douglas ME.
ClineHelpR: an R package for genomic cline outlier detection and visualization.
BMC Bioinformatics. 2021 Oct 16;22(1):501. doi: 10.1186/s12859-021-04423-x. PMID: 34656096; PMCID: PMC8520269.

OD-seq 0.99.3 – Outlier Detection in Multiple Sequence Alignments

OD-seq 0.99.3

:: DESCRIPTION

OD-seq is a practical and simple method to detect outliers in MSAs. It can also detect outliers in sets of unaligned sequences, but with reduced accuracy.

::DEVELOPER

Prof. Des Higgins

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Linux
  • C++ Compiler

:: DOWNLOAD

 OD-seq

:: MORE INFORMATION

Citation

OD-seq: outlier detection in multiple sequence alignments.
Jehl P, Sievers F, Higgins DG.
BMC Bioinformatics. 2015 Aug 25;16:269. doi: 10.1186/s12859-015-0702-1.

Aberrant 1.0 – Indentify Outliers from otherwise Guassian Distributions

Aberrant 1.0

:: DESCRIPTION

Aberrant is a R package for automatically indentiying outliers from otherwise Guassian distributions. It is designed for excluding samples from genome-wide association studies which have summary statistics of variation which differ from the sample at large.

::DEVELOPER

Celine Bellenguez and Chris CA Spencer

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

   Aberrant

:: MORE INFORMATION

Citation

Celine Bellenguez, Amy Strange, Colin Freeman, Wellcome Trust Case Control Consortium 2, Peter J Donnelly and Chris CA Spencer. (2011)
A robust clustering algorithm for identifying problematic samples in genome-wide association studies.