ngsTools – Programs to Analyze NGS data for Population Genetics Purposes

ngsTools

:: DESCRIPTION

ngsTools is a collection of programs for population genetics analyses from NGS data, taking into account its statistical uncertainty. The methods implemented in these programs do not rely on SNP or genotype calling, and are particularly suitable for low sequencing depth data.

::DEVELOPER

Matteo Fumagalli

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
C Compiler

:: DOWNLOAD

ngsTools

:: MORE INFORMATION

Citation

ngsTools: methods for population genetics analyses from next-generation sequencing data.
Fumagalli M, Vieira FG, Linderoth T, Nielsen R.
Bioinformatics. 2014 May 15;30(10):1486-7. doi: 10.1093/bioinformatics/btu041.

NGSTools 2.0.0 – Analysis of Next Generation Sequencing (NGS) data

NGSTools 2.0.0

:: DESCRIPTION

NGSTools package provides an object model to enable different types of analyses of Next Generation Sequencing (NGS) data, and some utility programs to process reads aligned to different reference genomes. The most important tools in this package are SNVQ, an accurate Single Nucleotide Variants (SNV) detection and genotyping algorithm from base calls and quality scores and a rule set to merge read alignments to a CCDS transcripts library with alignments of the same reads to a reference assembly.

::DEVELOPER

Bioinformatics Lab , Computer Science & Engineering Dept. University of Connecticut

:: SCREENSHOTS

Command Line

:: REQUIREMENTS

Windows / Linux / Mac OsX
Java

:: DOWNLOAD

NGSTools

:: MORE INFORMATION

Citation:

J. Duitama and P.K. Srivastava and I.I. Mandoiu,
Towards Accurate Detection and Genotyping of Expressed Variants fromWhole Transcriptome Sequencing Data
Proc. 1st IEEE International Conference on Computational Advances in Bio and Medical Sciences, pp. 87-92, 201

ngsTools 1.0.2 – Population Genetics Analyses from Next-generation Sequencing data

ngsTools 1.0.2

:: DESCRIPTION

ngsTools is a collection of programs for population genetics analyses from NGS data, taking into account data statistical uncertainty.

::DEVELOPER

ngsTools team

:: SCREENSHOTS

:: REQUIREMENTS

Linux
R

:: DOWNLOAD

ngsTools

:: MORE INFORMATION

Citation