OEFinder 0.0.2 – Identify Ordering Effect Genes in Single Cell RNA-seq data

OEFinder 0.0.2

:: DESCRIPTION

OEFinder is a user interface to identify and visualize ordering effects in single-cell RNA-seq data.

::DEVELOPER

Ning Leng

:: SCREENSHOTS

OEFinder

:: REQUIREMENTS

  • Linux
  • R

:: DOWNLOAD

 OEFinder

:: MORE INFORMATION

Citation

OEFinder: A user interface to identify and visualize ordering effects in single-cell RNA-seq data.
Leng N, Choi J, Chu LF, Thomson JA, Kendziorski C, Stewart R.
Bioinformatics. 2016 Jan 6. pii: btw004.

dendsort 0.2 – Optimize Ordering of Nodes in a Dendrogram

dendsort 0.2

:: DESCRIPTION

dendsort includes functions to optimize ordering of nodes in a dendrogram, without affecting the meaning of the dengrogram. A dengrogram can be sorted based on the average distance of subtrees, or based on the smallest distance value. These sorting methods improve readability and interpretability of tree structure, especially for tasks such as comparison of different disntance measures or linkage types and identification of tight clusters and outliers. As a result, it also introduces more meaningful reordering for a coupled heatmap visualization.

::DEVELOPER

Bioinformatics Research Group, Belgium

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / WIndows / MacOsX
  • R package

:: DOWNLOAD

 dendsort

:: MORE INFORMATION