Tag: Base-pair Resolution

derfinder v0.0.42 / regionReport 0.0.1 – Fast Differential Expression Analysis of RNA-seq data at Base-pair Resolution

derfinder 0.0.42 / regionReport 0.0.1

:: DESCRIPTION

derfinder is an annotation-agnostic fast differential expression analysis software of RNA-seq data at base-pair resolution.

regionReport: Generate HTML reports for a set of regions such as those from derfinder results.

::DEVELOPER

Jeff Leek

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOsX
  • R

:: DOWNLOAD

 derfinder , regionReport

:: MORE INFORMATION

Citation

Biostatistics. 2014 Jul;15(3):413-26. doi: 10.1093/biostatistics/kxt053. Epub 2014 Jan 6.
Differential expression analysis of RNA-seq data at single-base resolution.
Frazee AC, Sabunciyan S, Hansen KD, Irizarry RA, Leek JT

FusionMap 20180108 – Detecting Fusion Genes from Next-generation Sequencing data at Base-pair Resolution

FusionMap 20180108

:: DESCRIPTION

FusionMap is an efficient fusion aligner which aligns reads spanning fusion junctions directly to the genome without prior knowledge of potential fusion regions. It detects and characterizes fusion junctions at base-pair resolution. FusionMap can be applied to detect fusion junctions in both single- and paired-end dataset from either gDNA-Seq or RNA-Seq studies

::DEVELOPER

FusionMap team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/Windows

:: DOWNLOAD

 FusionMap

:: MORE INFORMATION

Citation

Bioinformatics. 2011 Jul 15;27(14):1922-8. Epub 2011 May 18.
FusionMap: detecting fusion genes from next-generation sequencing data at base-pair resolution.
Ge H, Liu K, Juan T, Fang F, Newman M, Hoeck W.