Tag: Multi-mapping

ORMAN 1.3 – Optimal Resolution of Ambiguous RNA-Seq Multi-mappings in the Presence of Novel Isoforms

ORMAN 1.3

:: DESCRIPTION

ORMAN ( Optimal Resolution of Multimapping Ambiguity of RNA-Seq Reads) is a tool for resolving multi-mappings within an RNA-Seq SAM file.

::DEVELOPER

Hach Lab

 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 ORMAN

:: MORE INFORMATION

Citation

Bioinformatics. 2014 Mar 1;30(5):644-51. doi: 10.1093/bioinformatics/btt591. Epub 2013 Oct 15.
ORMAN: optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms.
Dao P, Numanagić I, Lin YY, Hach F, Karakoc E, Donmez N, Collins C, Eichler EE, Sahinalp SC.

MMSEQ 1.0.2 – Isoform Expression Estimation using Multi-mapping RNA-seq reads

MMSEQ 1.0.2

:: DESCRIPTION

MMSEQ deconvolves the mapping of reads to multiple transcripts (isoforms or haplotype-specific isoforms). The software can take into account non-uniform read generation and works with paired-end reads.

::DEVELOPER

Dr Ernest Turro

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 MMSEQ

:: MORE INFORMATION

Citation

Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads.
Turro E, Su SY, Gonçalves Â, Coin LJ, Richardson S, Lewin A.
Genome Biol. 2011;12(2):R13. Epub 2011 Feb 10.