5 citations · 6 across the 7 of their papers we have counts for
8 papers
Vigemers: on the number of -mers sharing the same XOR-based minimizer
Florian Ingels, Antoine Limasset, Camille Marchet +1
In bioinformatics, minimizers have become an inescapable method for handling -mers (words of fixed size ) extracted from DNA or RNA sequencing, whether for sampling, storage,…
On the number of -mers admitting a given lexicographical minimizer
Florian Ingels, Camille Marchet, Mikaël Salson
The minimizer of a word of size (a -mer) is defined as its smallest substring of size (with ), according to some ordering on -mers. minimizers have been used…
Advances in practical k-mer sets: essentials for the curious
Camille Marchet
This paper provides a comprehensive survey of data structures for representing k-mer sets, which are fundamental in high-throughput sequencing analysis. It categorizes the methods…
Advances in colored k-mer sets: essentials for the curious
Camille Marchet
This paper provides a comprehensive review of recent advancements in k-mer-based data structures representing collections of several samples (sometimes called colored de Bruijn gra…
Sneak peek at the tig sequences: useful sequences built from nucleic acid data
Camille Marchet
This manuscript is a tutorial on tig sequences that emerged after the name "contig", and are of diverse purposes in sequence bioinformatics. We review these different sequences (un…
A resource-frugal probabilistic dictionary and applications in bioinformatics
Camille Marchet, Lolita Lecompte, Antoine Limasset +2
Indexing massive data sets is extremely expensive for large scale problems. In many fields, huge amounts of data are currently generated, however extracting meaningful information…
A resource-frugal probabilistic dictionary and applications in (meta)genomics
Camille Marchet, Antoine Limasset, Lucie Bittner +1
Genomic and metagenomic fields, generating huge sets of short genomic sequences, brought their own share of high performance problems. To extract relevant pieces of information fro…
Navigating in a sea of repeats in RNA-seq without drowning
Gustavo Sacomoto, Blerina Sinaimeri, Camille Marchet +3
The main challenge in de novo assembly of NGS data is certainly to deal with repeats that are longer than the reads. This is particularly true for RNA- seq data, since coverage inf…