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Most Commonly used Awk by Bioinformatician
Awk is a programming language that is specifically desig...'stuff | grep | sed | cut...' with a single call to awk. For a simpl...n the fly. You can use awk to make a neat one-liner for some qui...You can find a lot of online tutorials, but here I will only show a few examples which cover mos...3924 days ago
Bioinformatics and Sequencing Courses and Workshops
Swiss Institute of Bioinformatics (SIB) organises lots o...range of topics: http://www.isb-sib.ch/education/training-courses.html Canadian bioinf...d sequencing courses annually: http://www.embl.de/training/events/index.php?p_outstation...3918 days ago
Hidden Markov Models, Viterbi Algorithm, Markov Chain Exploration with script
Hidden Markov Models, the Viterbi Algorithm, and CpG Islands (in VB6) P...du/bio465/Labs/hmm.shtml Source code with expl...erstanding of HMM read this excellent tutorial htt...v Chain Exploration and understand it with...ww.planet-source-code.com/vb/scripts/ShowCode....3836 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation quantitative genetics in pl...accurate short read alignment with Burrows-Wheeler transform. Li &a...s 26:841-842, 2010. Publisher Website Data quality assessment, fil...he R-project.org website, and video tutorials are also available on You...3791 days ago
Bioinformatics infrastructure speed up Indian agriculture
"Realizing the paradigm shift it can bring about, the government is focusing on increased b...ri-sciences. Currently under process, the national grid on bioinformatics is expected make muc...3721 days ago
List of bioinformatics open source projects/software.
...ed under licenses that comply with the Open Source Definition.Th...lkit Bioinformatics Learning Tutorial (BLT) http://sourceforge.net/projects/biotutorial/ Educational interactive...ions aboute sequence variants with clinically relevant information....s and facilitates connections with other b...3768 days ago
List of In-silico Binding Site Prediction Tools
...nt an unbound pocket fragment with those selected from the canon...ures. The comparison results show that metaPocket improves the s...of known ligand binding sites within the PDB which is navigable...putative contacting residues. However, whilst most of this predi...lementation of depth reflects how central...3755 days ago
Perl one-liner for bioinformatician !!!
With the emergence of NGS technologies...$_) < 20' #print all lines with length less than 20.perl -00...paces, delete all leaving one(make the file a single spaced file...if /regex/' #Left align lines with 5 white spaces if matches a p...s/foo/bar/' #Substitute a foo with a bar in a line with a regexp. Re...3640 days ago
Next generation sequencing in R or bioconductor environment
There are many R software and bioconductor packages for NGS data an...epresenting genomic locations within the Bioconductor project. I...ools. Documentation Samtools Website BWA (Burrows-Wheeler Alignment) Website Additional tool...nfrastructure for interacting with a Biostring based genome sequ...3636 days ago
Apps for Busy Bioinformatics Researchers !!!
DNAApp: DNAApp: for iPhone/iPad This is an iOS app that allows...new update for iOS 7.1. Demo video can be found at: https://www.... When used in combination with other zip apps, and also web-...he go. Key features (Also in website):...of disease by analyzing cases with whole genome sequencing data t...3553 days ago
