MapSplice 2

 

MapSplice is a software for mapping RNA-seq data to reference genome for splice junction discovery that depends only on reference genome, and not on any further annotations.

For inquires or to report a bug, please email us mapsplice@netlab.uky.edu

Latest News

06/13/2016: MapSplice 2.2.1 is released. Click here to  download.

  • Fixed a bug when checking the quality score encoding of the input fastq file

 

 

08/14/2015: MapSplice 2.2.0 is released. Click here to  download.

  • Fixed a bug that some deletions are categorized as junctions and mistakenly printed to the junction output file
  • Fixed a bug that it gives an error when you set the -i/--min-intron < 10
  • Fixed a bug that could cause MapSplice to fail when annotating fusion junctions.
  • Option --non-canonical is renamed to --non-canonical-double-anchor, which enables the detection for double anchored non-canonical junctions
  • Added an option --non-canonical-single-anchor, which enables the detection for single anchored non-canonical junctions. This option might improve the non-canonical junction detection sensitivity for short reads <= 50bp. But it might significantly increase the running time and lower the specificity of the junction detection. Use with caution.
  • The lower limit of -s/--seglen is changed to 16 now

 

 

02/02/2015: MapSplice 2.1.9 is released. Click here to  download.

  • Fixed another GTF file compatibility issue for --gene-gtf.

 

 

07/01/2014: MapSplice 2.1.8 is released. Please go to the download page.

  • Added command line parameter --min-fusion-distance for better Circular RNA detection, please check the manual for more detail.
 
 
 

03/25/2014: MapSplice 2.1.7 is released. Please go to the download page.

  • Fixed a compilation issue with G++ 4.7 or higher.

 

 

01/27/2014: MapSplice 2.1.6 is released. Please go to the download page.

  • Fixed a GTF file compatibility issue for --gene-gtf.
 
 

07/12/2013: MapSplice 2.1.5 is released. Please go to the download page.

  • Fixed a bug that may cause crash of MapSplice when searching for insertions in some rare cases.

 

06/20/2013: MapSplice 2.1.4 is released. Please go to the download page.

  • Fixed a bug that may cause no result output when -m/--splice-mis is set to values other than default

 

05/17/2013: MapSplice 2.1.3 is released. Please go to the download page.

  • Fixed a minor soft clipping bug in junction filtering step

 

03/20/2013: MapSplice 2.1.2 is released. Please go to the download page.

  • Fixed a bug that may cause MapSplice to crash when aligning reads < 50bp

 

02/25/2013: MapSplice 2.1.0 is released. Please go to the download page.