Quick next generation sequencing (NGS) terms definition
fragment size: the Illumina WGS protocol generates paired-end reads from both ends of longer frag...eference genome as “expected”: (a) mapped to opposing strands where the upstream read is mapped to the forward str...2523 days ago
Awesome perl frameworks, libraries and software - PART 1
A curated list of awesome Perl framew...Remote-Driver - Perl Bindings to the Selenium Webdriver ser...SVG renderer in Perl famzah/langs-performance - C++ vs. Py...latypus - Write Perl bindings to non-Perl libraries with FF...and validate 'CouponCode' strings eserte/bbbike - BBBike...2490 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
kallisto Transcript abundance...++) http://www.cs.cmu.edu/~ckingsf/software/sailfish/ Salmon...SNP variants directly from raw NGS sequence reads by counting un...Wide Human SNP Array) from raw NGS reads (k-mer based) Software...orge.net/projects/ksnp/files/ NGS-MC Phylogeny of species base...2372 days ago
Converting BLAST output into CSV
Suppose we wanted to do something with all this BLAST output. Generally, that’...o that using the ‘git’ program: git clone https://github.com/ngs-docs/ngs-scripts.git /root/ngs-scripts...2338 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for...features, next-generation sequencing (NGS) data and the results of anal...VM Java Visual Mapping tool for NGS reads http://www.springer.co...sp; Handling genome position files in NGS studies http://sing.ei.uvigo...2284 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
The purpose of this cheat sheet is to introduce biologist and bioinformatician to the frequently used tools for NGS analysis as well as giving ex...2281 days ago
Webinar on RNA-Seq Data Analysis on 28 Feb 2018
Strand NGS is a biologist friendly NGS analysis tool that allows biologists...events and gene fusion detection. Strand NGS also s...tions.We will highlight the use of Strand NGS features such as PCA, sample...RNA-Seq data analysis workflow in Strand NGS. Details:Session 1: 28 Feb 2...2265 days ago
Learning Python Programming - a bioinformatician perspective !
Python Programming is a general purpose programming la...ges of python which are widely used in the big data, NGS, and bioinformatics. I will a...o walk through a real biological example which shows NGS data processing with the help...2183 days ago
Understanding BLASTn output format 6 !
...hes 6. gapopen number of gap openings 7. qstart start of ali...scoring matchesgapopen Number of gap openingsgaps Total number of gapsppo...Subject Title(s), separated by a '<>'sstrand Subject Strandqcovs Query Coverage Pe...2139 days ago
List of non-commercial NGS genotype-calling software
Meaningful analysis of next-generation sequencing (NGS) data, which are produced extensively by gen...nt database (for example, dbSNP) Package for NGS data analysis, which includes...le Aligned reads Package for manipulation of NGS alignments, which includes a...2097 days ago