Hidden Markov Models, Viterbi Algorithm, Markov Chain Exploration with script
Hidden Markov Models, the Viterbi Algorithm, and CpG Islands (in VB6) Problem : The...located around the promoters of housekeeping genes (which are essential for general cell functions) or other g...S2/S10 If you are more interested in explorin...3844 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation quantitative genetics in plants. Jiménez...assessment of Illumina second-generation sequencing data. Cox et...of large genomes using second-generation sequencing. Schatz et a...blisher Website Differential gene and transcript expression ana...3799 days ago
List of bioinformatics open source projects/software.
Open source software is software that can be freely used, change...designing and executing phylogenetic workflows AutoDock http:...Prot KB(Swiss-Prot + TrEMBL), Gene Ontology (GO), UniRef (50,90,...and data integration system GenePattern http://www.broadinsti...rver Bioinformatics and phylogenetics...3776 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
...ss/CDPOP CDPOP is a landscape genetics tool for simulating the emergence of spatial genetic structure in populations r...gram package for evolutionary genetics and genomics. http://eggl...ulates interactions among two genetic and one environmental fact...sequence evolution along phylogenetic...3757 days ago
List of In-silico Binding Site Prediction Tools
Following are the list of In-silico Binding Site Prediction in Proteins tools...sp;is a web service for interactively exploring not only hot spot and an...milarities with the query protein and generates structure-based alignmen...ing a single frame or multiple frames generate...3764 days ago
Perl one-liner for bioinformatician !!!
With the emergence of NGS technologies, and sequencing data most of the bioinformatici..."; print map { int(rand($max-$min))+$min } 1..$n' #Generates 10 random numbers betwee...,”0”..”9”)[rand 36] } 1..8'#Generate...3648 days ago
Next generation sequencing in R or bioconductor environment
There are many R software and bioconductor packages for NGS data analysis, some of them are as follows...s functions to retrieve the sequences around peaks, obtain enriched Gene Ontology (GO) terms, find the nearest gene, ex...3644 days ago
Commercial and public next-gen-seq (NGS) software
Integrated solutions CLCbio Genomics Workbench - de novo and ref...eq, DNA-Seq, DNA Methylation, Gene Expression, Exon, miRNA Expre...omas Wu and Colin Watanabe at Genentec. C/Perl for Unix. gnumap...ool REPuter, but is much more general, with a very flexible user...alization Tool. It provides a generic...3538 days ago
3516 days ago
Apps for Busy Bioinformatics Researchers !!!
DNAApp: DNAApp: for iPhone/iPad This is an iOS app that allows for t...s?id=bii.seqdatreader&hl=en BioGene:iPhone/iPad BioGene is an information tool for bi...d viewer. Key Features: Look up genes by symbol or description. G...ges. Key features: Search using gene nam...3561 days ago