Tag: Sanger

SnackVar v2.4.3 – Sanger Sequencing analysis in Clinical Environment

SnackVar v2.4.3

:: DESCRIPTION

SnackVar is a free software for Sanger sequencing analysis in clinical environment.It supports automatic detection of variants including SNVs and indel variants (homozygous and heterozygous).

::DEVELOPER

Young-gon Kim.

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux /  MacOS
  • Java

:: DOWNLOAD

SnackVar

:: MORE INFORMATION

Citation

Kim YG, Kim MJ, Lee JS, Lee JA, Song JY, Cho SI, Park SS, Seong MW.
SnackVar: An Open-Source Software for Sanger Sequencing Analysis Optimized for Clinical Use.
J Mol Diagn. 2021 Feb;23(2):140-148. doi: 10.1016/j.jmoldx.2020.11.001. Epub 2020 Nov 24. PMID: 33246077.

tracy v0.5.9 – Basecalling, Alignment, Assembly and Deconvolution of Sanger Chromatogram trace files

tracy v0.5.9

:: DESCRIPTION

Tracy is an efficient and versatile command-line application that enables basecalling, alignment, assembly and deconvolution of sequencing chromatogram files.

::DEVELOPER

Tobias Rausch

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

Tracy

:: MORE INFORMATION

Citation:

Rausch T, Fritz MH, Untergasser A, Benes V.
Tracy: basecalling, alignment, assembly and deconvolution of sanger chromatogram trace files.
BMC Genomics. 2020 Mar 14;21(1):230. doi: 10.1186/s12864-020-6635-8. PMID: 32171249; PMCID: PMC7071639.

ODS – Online Diagnosis System for Sanger Sequencing based Genetic Testing

ODS

:: DESCRIPTION

ODS (Online Diagnosis System) is a webserver for analysis of Sanger sequencing-based genetic testing data.

::DEVELOPER

Dr. Sun Hao’s Bioinformatics Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Online Diagnosis System: A webserver for analysis of Sanger sequencing-based genetic testing data.
Sun K, Yuen YP, Wang H, Sun H.
Methods. 2014 Jul 22. pii: S1046-2023(14)00239-4. doi: 10.1016/j.ymeth.2014.07.002.

iAssembler 1.3.2 – de novo Assembly of Roche-454/Sanger Transcriptome Sequences

iAssembler 1.3.2

:: DESCRIPTION

iAssembler is a standalone package to assemble ESTs generated using Sanger and/or Roche-454 pyrosequencing technologies into contigs.

::DEVELOPER

Fei Bioinformatics Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  •  Linux
  • Perl
  • Bioperl

:: DOWNLOAD

 iAssembler

:: MORE INFORMATION

Citation

Zheng Y, Zhao L, Gao J, Fei Z. (2011)
iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences.
BMC Bioinformatics 12:453

ReadSim 0.12 – Simulator for Sanger and 454 Sequencing

ReadSim 0.12

:: DESCRIPTION

ReadSim is  a sequencing simulator that simulates the sequencing of reads both for Sanger and pyro-sequencing, optionally involving mate-pairs.

::DEVELOPER

Darwin Rocks Team

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / MacOsX / Linux
  • Java

:: DOWNLOAD

ReadSim

:: MORE INFORMATION

ReadSim is no longer maintained. All concepts of ReadSim are integrated into our new software MetaSim.