Sequencing

SSG-Generator (formerly Scheduled Sequencing Graph Generator) is a simple, open-source, academic software written to understand fundamentals of High Level Synthesis of system design.

Drums++ is a programming language I designed for sequencing music through drum machines. Drums++ program uses simple C ideas, for example // and /* */ comments and { } to seperate sections. I tried to make it as simple as possible so even a non-programmer could use it. See the docs section for...

BSmapper - Sequence mapper for bisulfite sequencing reads for DNA methylation studies. Can handle Sanger and 454 reads for mapping to whole genomes or target regions.


Platforms: Mac

ExtraPuTTY is a fork of Putty, which : * allow win32 application to send,receive data on Telnet, SSH, RLogin and Raw protocols. * offers TestStand steps to send,receive data on Telnet, SSH, RLogin and Raw protocols. * automatic sequencing of commands. * generate report...


Platforms: Windows

Some features are: Automatic Clocking in and out sequencing. Employee tips can be collected as an option when employees clock out, this will help the restaurant managers dealing with the IRS. Translations of common messages to employees in their local language. Optional rounding to the nearest...


Platforms: Windows

libjdkmidi is a C++ MIDI Library. This library was originally a collection of utility functions for MIDI written in C back in 1986 for the Atari ST computer. Since then it has evolved into a fairly powerful C++ MIDI Library including: - MIDI parsing - MIDI Show Control message creation and...


Platforms: *nix

The Celera Genome Browser, developed at Celera Genomics as part of Celera's sequencing and annotation of the human genome, and released as open source in 2006.


Platforms: Linux

SeqEntropy was designed as an accessible, easy-to-use and handy assessment instrument of sequence repeats for short read sequencing. Now you can access and make use of this useful tool directly from the Command Line Interface found in your system.


Platforms: Windows

The Integrated Genome Browser (IGB, pronounced Ig-Bee) is an interactive, zoomable, scrollable software program you can use to visualize and explore genome-scale data sets, such as tiling array data, next-generation sequencing results, genome annotations, microarray designs, and the sequence...


Platforms: Windows

iMethy is a handy, easy to use genome-wide DNA methylation analysis and visualization application based on next generation sequencing. Firstly, it holds the command-line pipeline to align the bisulfite-treated short read, identify the methylcytosine at CG/CHG/CHH sites, detect the methylation...


Platforms: Windows

GNomEx is Genomic LIMS and Analysis Project Center designed by the Huntsman Cancer Institute for use by microarray and next generation sequencing core facilities and large research laboratories. KWs: Illumina, Affymetrix, Agilent, MAGE, MySQL/Flex...


Platforms: Windows

The Celera Genome Browser, developed at Celera Genomics as part of Celera's sequencing and annotation of the human genome, and released as open source in 2006.


Platforms: Linux

USeq is a collection of software tools for for both low and high level analysis of next generation, ultra high throughput signature sequencing data from the Solexa, SOLiD, and 454 platforms. Initial emphasis: chIP-seq and RNA-Seq with FDR estimations. USeq is under continuous development at...


Platforms: Windows

The advent of massively parallel sequencing technologies has fundamentally changed the study of genetics. New platforms like the Illumina GAIIx and the Roche GS yield unprecedented levels of sequencing throughput. The analysis and interpretation of data from next-generation sequencing platforms...


Platforms: Windows

CoNIFER, also knows as Copy Number Inference From Exome Reads is a Python-based tool that uses exome sequencing data to find copy number variants (CNVs) and genotype the copy-number of duplicated genes. As exome capture reactions are subject to strong and systematic capture biases between sample...


Platforms: Windows

ncRNA Mapper is a computer program that gives more insight in the localization of sequencing fragments. Given that sequencing of RNA gives reads at fixed base-positions, ncRNA Mapper analyzes the alignments (generated by Short Sequence Location Mapper; SSLM) by: visualizing them, retrieving the...


Platforms: Windows

TB antibiotic resistance mapper was developed as a specialized tool that can help you map sequencing reads with the MTB reference genome (H37Rv) using NCBI blast, in order to find out mutation sites. Now you can quickly discover mutations with the help of this instrument.


Platforms: Windows

Have you ever needed to generate easy to read Quality Reports for your DNA sequencing? Have you ever needed to sort your DNA trace files by quality? Have you ever needed to change the comments tag in your Chromatograms? If so, this software suite is for you. This bundle includes: Mac Sequence...


Platforms: Mac

Using super-fast, integrated, high-performance computing algorithms, CLC Genomics Workbench sets a new standard for desktop based reference assembly and de novo assembly of SOLiD, Solexa, 454, and Helicos sequencing data# De novo assembly of Sanger, 454, Solexa, Helicos, and SOLiD data -...


Platforms: Mac

AnnTools is an efficient, fast and robust bioinformatics tool annotating SNP and CNV calls generated from sequencing and microarray data.


Platforms: Mac, BSD, Linux