Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets
Simka is a de novo comparative metagenomics tool. Simka represents each dataset as a k-mer spectrum and compute sev...ve metagenomics method dedicated to NGS datasets. https://gatb.inria.fr/software/si...1822 days ago
Shouji: a fast and efficient pre-alignment filter for sequence alignment
The ability to generate massive amounts of sequencing data continues to overwhelm the processing capacity of existi...ms and compute infrastructures. In this work, we explore the use of hardware/software co...1701 days ago
Bioinformatics web development course
This web development course, targeted at Biology and Bioinformatics students, aims at teaching from scratch all the skills needed to setup a fully working Linux web server and...1698 days ago
Seq: A high-performance, Pythonic language for bioinformatics
Seq is a programming language for computational genomics and bioinformatics. With a Python-compatible synta...ific features and optimizations, Seq makes writing high-performance genomics software as...1682 days ago
StringTie Transcript assembly and quantification for RNA-Seq
StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts. It uses a...enes between experiments, StringTie's output can be processed by specialized software li...1483 days ago
RePS: Repeat-masked Phrap with scaffolding, a WGS sequence assembler
RePS (Repeat-masked Phrap with scaffolding), a WGS sequence assembler, that explicitly identifies exact kmer repeat...rom the shotgun data and removes them prior to the assembly. The established software Ph...1640 days ago
Kevler: Reference-free variant discovery in large eukaryotic genomes
Welcome to kevlar, software for predicting de novo genetic variants without mapping reads to a reference genome! kevlar's k-mer abundance based method...1616 days ago
EFS: an ensemble feature selection tool implemented as R-package and web-application
The software EFS (Ensemble Feature Selection) makes use of multiple feature selection methods and combines their normalized outputs to a quantitative ensemble importance....1616 days ago
1611 days ago
Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
Rcorrector has an accuracy higher than or comparable to existing methods, including the only other method (SEECER)...for 100 million reads, it can be run on virtually any desktop or server. The software is...1608 days ago