Online tools

Results

Query : Tool [subsection]

Online Tools (19)

Translate Illumina Bustard output to a fastq file

Author(s)

Khalid Belkhir


Version

1


Subsections

Tool


Base composition and read size distribution

Author(s)

MBB dev team


Version

1


Subsections

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.

Author(s)

Bininda-Emonds


Version

1


Subsections

Tool - Alignment


AFCR

Tool

 

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.

Author(s)

Khalid Belkhir


Version

1


Subsections

Tool


Co-dominant Markers pair-wise genetic distances.

Author(s)

Khalid Belkhir


Version

1


Subsections

Tool


Co-dominant Markers permutation on pair-wise distances.

Author(s)

Khalid Belkhir


Version

1


Subsections

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.

Author(s)

Sara Jaillet & Khalid Belkhir


Version

1


Subsections

Tool


Under development

Author(s)

MBB Development team


Version

1


Subsections

Tool


ReadSeq

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.

Author(s)

D. Gilbert


Version

1


Subsections

Tool


wgsim simulator program from samtools

Author(s)

Heng Li


Version

1


Subsections

Tool - Mapping


LS TEST

Tool

 

This is a simple test of Pise

Author(s)

Julien V, Jimmy L


Version

1


Subsections

Tool


Tags

Apps


AFCRPOP

Tool

 

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.

Author(s)

Unknown


Version

1


Subsections

Tool


IDxen

Pipeline

 

IDxen : EPA on mitochondrial reads.

Author(s)

Julien Veyssier


Version

1


Subsections

Pipeline - Tool


IDxen upload

Alignment

 

Tool to upload new reference versions to IDxen.

Author(s)

Julien Veyssier


Version

1


Subsections

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.

Author(s)

Unknown


Version

1.1


Subsections

Tool - Blast


Tags

RNA-seq - Apps


Softwares (3)

PopPhyl

Tool

  

The PopPhyl project provides a set of publicly available tools C++ code to achieve SNP and genotype calling (with home made algorithms). Also are provided wrappers to use this tools in the Galaxy platforms.

Executables tools

  • Reads2SNP C++ executable (Static compilation for 32, 64 bits Linux and binary for MacOS)(download)
  • dNdSpiNpiS C++ executable (Static compilation for 64 bits Linux)(download)
  • ORF extractor perl script (download)
Galaxy-related tools

Author(s)

Nicolas Galtier et al.


Version

1


Platform

Linux - Windows - Mac


Source

Yes


Downloads

0


Subsections

Tool - Mapping - Assembler


Tags

ISEM




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