Results

Translate Illumina Bustard output to a fastq file

Khalid Belkhir

1

Tool

Base composition and read size distribution

MBB dev team

1

Tool

Multiple alignment of protein-coding DNA sequences : Facilitates the multiple alignment of protein-coding DNA sequences by aligning the amino acids sequences they specify.

Bininda-Emonds

1

Tool - Alignment

This procedure is aimed to reduce the dimensionality of a genotypic data to visualize them in a subspace of 2 or 3 dimensions. Adapted from ca R-package by Nenadic and Greenacre.

Khalid Belkhir

1

Tool

Co-dominant Markers pair-wise genetic distances.

Khalid Belkhir

1

Tool

Co-dominant Markers permutation on pair-wise distances.

Khalid Belkhir

1

Tool

Used in order to perform a Mantel test based on two distance matrix. The number of permutations can be specified. An HTML file containing a graphical representation of the statistic Z distribution is generated.

Sara Jaillet & Khalid Belkhir

1

Tool

Under development

MBB Development team

1

Tool

Readseq was written originally around 1989 a component of a sequence analysis program, but when I added a small, simple command-line interface, it took on a life of its own as a conversion program for bioinformatics. It's main contribution to bioinformatics is it takes on the job of guessing what your input biosequence data format is, and converting it to what your software knows how to handle.

D. Gilbert

1

Tool

wgsim simulator program from samtools

Heng Li

1

Tool - Mapping

This is a simple test of Pise

Julien V, Jimmy L

1

Tool

Apps

This procedure is aimed to reduce the dimensionality of a genotypic data to visualize them in a subspace of 2 or 3 dimensions. Adapted from ca R-package by Nenadic and Greenacre. Pseudo-individus are constructed for each population by summing individual alleles counts. These values are then added to the matrix of individual alleles and analysed with ca() while setting only the pseudo-individus as active elements.

Unknown

1

Tool

IDxen : EPA on mitochondrial reads.

Julien Veyssier

1

Pipeline - Tool

Tool to upload new reference versions to IDxen.

Julien Veyssier

1

Alignment - Phylogenetic reconstruction - Pipeline - Tool

Magic-BLAST is a new tool for mapping large sets of next-generation RNA or DNA sequencing runs against a whole genome or transcriptome.

Unknown

1.1

Tool - Blast

RNA-seq - Apps

This interactive application is an R shiny wrapper around the SIMRAD package. Given a particular genome, the user can simulate an inSillico RAD sequencing experiment. Interactively playing with different parameters including fragments size and Restriction enzymes one can assess the amount of sequencing runs needed for a multiplexing design and an expected coverage.

BELKHIR

1

Alignment - Mapping - Tool