- 2017-02-28: New publication on the methodological part of KisSplice: Leandro Lima, Blerina Sinaimeri, Gustavo Sacomoto, Helene Lopez-Maestre, Camille Marchet, Vincent Miele, Marie-France Sagot and Vincent Lacroix. Playing hide and seek with repeats in local and global de novo transcriptome assembly of short RNA-seq reads. Algorithms for Molecular Biology, 2017, 12 (1), pp.2. <10.1186/s13015-017-0091-2>
- 2016-12-01: kissDE version 1.4.0 Release
- 2016-07-31: Our NAR paper is out. Full protocol to reproduce the results is available here
- 2016-04-14: KisSplice version 2.4.0-p1 Release
- 2016-01-08: KisSplice version 2.4.0 Release
KisSplice is a software that enables to analyse RNA-seq data with or without a reference genome. It is an exact local transcriptome assembler that allows to 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. It has been tested on Illumina datasets of up to 1G reads. Its memory consumption is around 5Gb for 100M reads.
KisSplice is not a full-length transcriptome assembler. This means that it will output the variable regions of the transcripts, not reconstruct them entirely.
KisSplice comes as a workflow, with several possible post-treatments meant to facilitate the analysis of the results. The choice of the post-treatment depends on the availability of a reference genome/transcriptome and on the need to perform a differential analysis, as summarised in the following table.