QuASAR – Joint Genotyping & ASE Inference for RNA-seq data

QuASAR

:: DESCRIPTION

QuASAR (Quantitative allele specific analysis of reads) is an R package, that implements a statistical method for: i) genotyping from next-generation sequencing reads, and ii) conducting inference on allelic imbalance at heterozygous sites.

::DEVELOPER

Roger Pique-Regi

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • R

:: DOWNLOAD

 QuASAR

:: MORE INFORMATION

Citation

QuASAR: Quantitative Allele Specific Analysis of Reads.
Harvey CT, Moyerbrailean GA, Davis GO, Wen X, Luca F, Pique-Regi R.
Bioinformatics. 2014 Dec 4. pii: btu802

Quasar 1.2 – Score & Rank Sequence-structure Alignments

Quasar 1.2

:: DESCRIPTION

Quasar (quality of sequence–structure alignments ranking)  is a flexible tool for calculating quality scores of sequence-structure alignments. The main reason for its flexibility is that you do not have to write any additional Java code in order to combine single alignment quality scores (also called scoring schemes) to scoring function (done by score conductors) but you only have to provide the system a XML – like configuration file.

::DEVELOPER

Institut für Informatik, Ludwig-Maximilians-Universität München

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / Mac OsX
  • Java

:: DOWNLOAD

Quasar

:: MORE INFORMATION

Citation

Fabian Birzele, Jan Gewehr, Ralf Zimmer.
QUASAR–scoring and ranking of sequence-structure alignments.
Bioinformatics, vol 21, no. 24, pp. 4425–4426, Dec 2005.