Table 1.

Summary of the Colib’read tools inputs and outputs

Tool	In	Out
KISSPLICE	One or more RNA-seq read set(s)	SNPs, small indels, alternative splicing events
DISCOSNP	One or more raw genomic read set(s)	SNP sequences with their coverages
TAKEABREAK	One or more raw genomic read set(s)	Inversion breakpoints
MAPSEMBLER2	Pieces of known sequences, and associated raw read sets	Validation and visualization of genome structure near a locus of interest
COMMET	Several raw metagenomic complex read sets	Global comparison of input sets at the read level
LORDEC	Illumina and PacBio read sets	Corrected PacBio read set