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Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation...ement, and alignment software tools The Sequence Alignment/Map format and SAMtools. Li et al, Bioinformatics 25...011. PubMedCentral Geoseq: a tool for dissecting deep-sequencin...ed with a variety of software tools installed and ready to use....3780 days ago
List of bioinformatics open source projects/software.
Open source software is software that ca...y-foundation-evolves-into-new-toolkit-net-bio.aspx A language-neutral bioinformatics toolkit built using the Microsoft...g-stage.nci.nih.gov/community/tools/caArray ontologic represent...al Dipolar Coupling data SAM Tools Data format (SAM) and accom...3757 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
List of generic simulation software/tools/resource with brief descript...goryid=3283CoaSim CoaSim is a tool for simulating the coalescent...imulation Program. A software tool for testing and investigating...unt.sourceforge.net/MetaSim A tool to generate collections of sy...3738 days ago
List of In-silico Binding Site Prediction Tools
Following are the list of In-silico Bind...mely fast and powerful search tool that facilitates exploration...rch. Currently it is the only tool that offers this kind of inte...ftware is available, as a web tool, free of charge for academic...gi-bin/screen2.cgi is a tool for identifying protein cavit...3744 days ago
Next generation sequencing in R or bioconductor environment
There are many R software and bioconduct...GenomicRanges, ShortRead, Rsamtools, etc. Documentation Gen...ages including ShortRead, Rsamtools, rtracklayer, GenomicFeature...ina reads. Documentation Rsamtools Rsamtools provides function...t data in BAM format (via Rsamtools) and associating them with g...3625 days ago
Commercial and public next-gen-seq (NGS) software
Integrated solutions CLCbio Genomics Wor...visualization and statistics tool from SAS. They are working with NCGR to refine this tool and produce others. NextGENe...Vmatch - A versatile software tool for efficiently solving large...MapNext - MapNext: A software tool for spliced and unspliced ali...3519 days ago
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