We wil be updating this page frequently with useful sequencing-related resources for researchers. If you have any suggestions for additional resources please use the feedback box at the bottom of the page to let us know.
Guide for determining read depth, coverage and other essential information for those new to Next Generation Sequencing.
Description of all library preparation kits and techniques offered on Genohub.
Useful review describing the differences between HiSeq, Roche 454 GS FLX, SOLID and Sanger 3730xl.
Excellent guide that compares sequencing platforms, describing their strengths and weaknesses for various NGS applications.
This calculator not only determines the amount of coverage needed for a particular Next Generation Sequencing run, but also displays the service providers who offer sequencing services based on your results.
Calculates the number of Illumina HiSeq or MiSeq sequencing lanes needed based on your required coverage.
Allows you to calculate Tm, chance that your oligo will self dimerize or form a hairpin structure. Also has Blast and mfold feature.
Allows you to calculate Tm, chance that your oligo will self dimerize or form a hairpin structure. Also has Blast and mfold feature, along with the ability to use modified bases in your calculations.
Find primers specific to your PCR template.
Allows you to pick primers from any DNA sequence.
This calculator gives the amplification efficiency of a qPCR reaction based on the slope of the standard curve.
Calculator to convert the slope produced by a qPCR standard curve to % efficiency.
Popular online forum for the sequencing and bioinformatics community
Bioiformatics Q&A Site
A tabular view of a large number of open-source and commercial software tools
A small collection of NCBI tools such as the Amino Acid Explorer and BLAST
Lab7's BioBuilds package is a collection of pre-built binaries for common bioinformatics tools. BioBuilds is available for most Linux variants and OS X. Tools in BioBuilds run "out-of-the-box", with all dependencies included. Lab7 offers next generation sequencing pipeline and workflow management software and services.
Galaxy is an open, web-based platform for data intensive biomedical research. Whether on the free public server or your own instance, you can perform, reproduce, and share complete analyses.
The Genome Analysis
Software package developed at the Broad Institute to analyse next-generation resequencing data. It's free for academic use. Parts of the package are closed-source for commercial use.
A set of freely available tools for biological computation written in Python by an international team of developers
A toolkit of perl modules useful in building bioinformatics solutions in Perl
and Computational Biology
MIT course taught by Dr. George Church available via OpenCourseWare
UC San Diego
Bioinformatics Algorithms on Coursera
Free course covering algorithms underlying some fundamental topics in bioinformatics
Primer for Computer Scientists (PDF)
A short ground-up biology primer by Franco P. Preparata (Brown University)
Biology for Computer Scientists (PDF)
Free chapter from the book 'Artificial Intelligence and Molecular Biology' by Lawrence Hunter
Biology: Genomes, Networks, Evolution
A more recent version of the computational biology course offered by the EECS department at MIT. Includes detailed lecture notes and has a focus on algorithms.