Galaxy |

Repository quasitools

Name: quasitools

Owner: nml

Synopsis: A collection of tools for analysing Viral Quasispecies

Detailed description:

Includes aacoverage, callaavar, callcodonvar, callntvar, consensus, distance, dnds, drmutations, and the hydra pipeline.

Content homepage: https://github.com/phac-nml/quasitools

Development repository: https://github.com/phac-nml/quasitools

Link to this repository revision: https://toolshed.g2.bx.psu.edu/view/nml/quasitools/9fb9fed71486

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/nml/quasitools

Type: unrestricted

Revision: 6:9fb9fed71486

This revision can be installed: True

Times cloned / installed: 522

Contents of this repository

Name	Description	Version	Minimum Galaxy Version
Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
Complexity View tool metadata	measures the complexity of the quasispecies reads	0.5.0	16.01
Quasispecies Distance View tool metadata	Calculate the evolutionary distance between viral quasispecies.	0.4.2	16.01
Amino Acid Variants View tool metadata	Identifies amino acid mutations	0.4.2	16.01
Amino Acid Coverage View tool metadata	Builds an aa census and returns its coverage	0.4.2	16.01
Nucleotide Variants View tool metadata	Identifies nucleotide variants	0.4.2	16.01
Hydra pipeline View tool metadata	Identifies drug resistance within an NGS dataset	0.4.2	16.01
Codon Variants View tool metadata	Identifies codon variants and non-synonymous/synonymous mutations	0.4.2	16.01
Drug Resistance Mutations View tool metadata		0.4.2	16.01
Consensus Sequence View tool metadata	Generate a consensus sequence from a BAM file	0.4.2	16.01
Quality control View tool metadata	Performs quality control on FASTQ reads.	0.4.2	16.01
dNdS Report View tool metadata	Calculate the dN/dS value for each region in a bed file	0.4.2	16.01