Section: Software and Platforms

kisSplice & KisSplice2igv

Participants : Lilia Brinza [EPI] , Rayan Chikhi, Alice Julien-Lafferière [EPI] , Janice Kielbassa, Vincent Lacroix [Contact, EPI] , Camille Marchet [EPI] , Claire Lemaitre, Pierre Peterlongo, Gustavo Sacomoto [EPI] , Marie-France Sagot [EPI] , Raluca Uricaru.

Enables to analyse RNA-seq data with or without a reference genome. It is an exact local transcriptome assembler, which can identify SNPs, indels and alternative splicing events. It can deal with an arbitrary number of biological conditions, and will quantify each variant in each condition. KisSplice2igv is a pipeline that combines the outputs of KisSplice to a reference transcriptome (obtained with a full-length transcriptome assembler or a reference database). It provides a visualisation of the events found by KisSplice in a longer context using a genome browser (IGV ).

http://kissplice.prabi.fr/