MiRPlex 0.1 – microRNA Prediction from High-throughput Sequencing data

MiRPlex 0.1

:: DESCRIPTION

MiRPlex is a tool for microRNA prediction from high-throughput sequencing data that requires only small RNA datasets as input.

::DEVELOPER

the RNA Computational Biology group at the University of East Anglia (UEA)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux
  • Java

:: DOWNLOAD

 MiRPlex

:: MORE INFORMATION

Citation

Mapleson, D.; Moxon, S.; Dalmay, T.; Moulton, V.,
MirPlex: A tool for identifying miRNAs in high-throughput sRNA datasets without a genome.
J Exp Zool B Mol Dev Evol. 2013 Jan;320(1):47-56. doi: 10.1002/jez.b.22483. Epub 2012 Nov 26.

HiTEC 20110131 – Accurate Error Correction in High-throughput Sequencing data

HiTEC 20110131

:: DESCRIPTION

HiTEC (High Throughput Error Correction) , an algorithm that provides a highly accurate, robust and fully automated method to correct reads produced by high-throughput sequencing methods. The approach provides significantly higher accuracy than previous methods. It is time and space efficient and works very well for all read lengths, genome sizes and coverage levels.

::DEVELOPER

LUCIAN ILIE

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 HiTEC

:: MORE INFORMATION

Citation

L. Ilie, F. Fazayeli, S. Ilie,
HiTEC: accurate error correction in high-throughput sequencing data,
Bioinformatics 27(3) (2011) 295 — 302.

NGC 0.0.1 – Compressor for High-throughput Sequencing data

NGC 0.0.1

:: DESCRIPTION

NGC is a compressor for aligned HTS sequencing data that enables the complete lossless and lossy compression of mapped alignment data stored in SAM/BAM files.

::DEVELOPER

Niko Popitsch the Center of Integrative Bioinformatics Vienna (CIBIV)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • Java

:: DOWNLOAD

 NGC

:: MORE INFORMATION

Citation

Niko Popitsch and Arndt von Haeseler
NGC: lossless and lossy compression of aligned high-throughput sequencing data
Nucl. Acids Res. (7 January 2013) 41 (1): e27.

STARRInIGHTS – Strain-based Tree Analysis and Recombinant Region Inference In Genomes from High-Throughput Sequencing projects

STARRInIGHTS

:: DESCRIPTION

STARRInIGHTS is a computational pipeline for inferring homologous recombination breakpoints in populations of closely related bacterial genomes.

::DEVELOPER

The Alm lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / Mac OsX
  • Perl
  • Java

:: DOWNLOAD

 STARRInIGHTS

:: MORE INFORMATION