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Pipeline Nextflow

UTOPIA: an automatically UpdaTed, cOmPlete and consistent ITS reference dAtabase

The software enable to retrieve information (exon boundaries, mutation effect, known SNP...) about transcribed SNP. It's based on ensembl API.

TilSeg is a tool designed to use the information from contiguous probes and it will merge them into longer segment stretches. Depending on the experiment, the chip type and the statistical analysis made, those segments may have different meanings and

report from a BAM alignment the number of BX:Z: tags shared between to blocks of given size

Oxford Nanopore and Bionano Genomics technologies evaluation for plant structural variations detection.

Tutorial example for creation of a snakemake workflow using a singularity container on a hpc

Tutorial example for creation of a snakemake workflow using a singularity container on a hpc

The pyrocleaner is intended to clean the reads included in the sff file in order to ease the assembly process.

A set of population genomic scripts and utilities.

PAQmiR : Prediction Annotation and Quantification of miRNA with miRDeep2

NGSPipelines integrates pipelines and user interfaces to help biologists to analyse data outputed from biological applications such as RNA-seq, sRNA-seq, Chip-Seq, BS-seq, and so on.

Multiple is a program for de novo discovery of DNA motifs corresponding to Transcription Factor binding sites based on a probabilistic model of the DNA sequence that incorporates expression data as covariates.

Some scripts for the methylation analysis of the ChickStress project.