3929 days ago
Hidden Markov Models, Viterbi Algorithm, Markov Chain Exploration with script
Hidden Markov Models, the Viterbi Algorithm, and CpG Islands (in VB6) Problem : The CG island is a stretch of DNA (usually longer than 200 bases) in which the frequency...3839 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation quantitative genetics in pl...gene content: a comparison of annotation in two Bos taurus assembl...h to detect multiple modes of protein–DNA binding from genome-wi...Genomic Regions Enrichment of Annotations Tool - A web service to test...3793 days ago
List of bioinformatics open source projects/software.
Open source software is software that can be freely used, changed, and shared (in modi...or expertise and knowledge exchange. Database of annotations aboute...ays REDCRAFT software for determining tertiary protein structure given assigned Residua...3771 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
List of generic simulation software/tools/resource with brief descri...me/software/bottlesim.htmlCASS Protein Sequence Simulation http://ww...m to simulate the evolution of protein sequences under the constrain...ly divergent DNA sequences and protein superfamil...https://code.google.com/p/pirs/ProteinEvo...3751 days ago
List of In-silico Binding Site Prediction Tools
Following are the list of In-silico Binding Site Prediction in Proteins tools CASTp : http://sts.bi...for the automated functional annotation of nove...redicting functional sites in protein structures are increasingly beco...me an Van der Waals volume of proteins using a Monte carlo algorithm....3758 days ago
Perl one-liner for bioinformatician !!!
With the emergence of NGS technologies, and sequencing data most of the bioinformaticians mun...http://biowize.wordpress.com/2012/06/15/command-line-magic-for-your-gene-annotations/ http://genomics-array.blog...3642 days ago
Next generation sequencing in R or bioconductor environment
There are many R software and bioconductor packages for NGS data an...es an interface for exporting annotation feature data to various genom...ntifying DNA binding sites of proteins in ChIP-Seq experiments. Its al...kAnno package provides. batch annotation of the peaks identified from...3639 days ago
Commercial and public next-gen-seq (NGS) software
Integrated solutions CLCbio Genomics Workbench - de novo and refere...Smith-Waterman-Gotoh) of DNA/protein against a reference. Authors...near exact matches in DNA or protein databases using a hash table....ating the location of a bound protein of interest. Original algorithm...3533 days ago
Apps for Busy Bioinformatics Researchers !!!
DNAApp: DNAApp: for iPhone/iPad This is an iOS app that allows fo...ser, is a project that offers protein-protein physical/enzymatic interactio...abases to retrieve up-to-date annotation information for over 30 speci...abases to retrieve up-to-date annotation information for over 30specie...3555 days ago