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CovCal: Coverage / Read Count Calculator
...calculated as C=LN/G and reads as N=CG/L where C = Coverage (X),L = Read length (bp), G = Haploid genome size (bp), and N = Number of reads. Source code on GitHub.2165 days ago
Linux command line exercises for NGS data processing
The purpose of this tutorial is to introduce students to the frequently used tools for NGS analysis as well as giving experience in writing one-liners. Copy the requir...2873 days ago
- ...at http://quin.jax.org QuIN is developed in Java and JavaScript, utilizing an Apache Tomcat web server and MySQL database and the source code is available under the GPLV3...
2868 days ago
- ...rom biology and bioinformatics community, to get benefited by performing down-stream analysis tasks while eliminating the need to write programming code. CSBB is currently available...
2866 days ago
- ...of the same data-sets, VALET also reports an overall estimate of the likelihood a particular assembly is correct. Home Page: VALET code repository...
2781 days ago
- Watch out: only a few files are counted in coverage statistics. Full documentation on Read the Docs. A set of tools for viral metagenomics. virmet is called wi...
2763 days ago
- ...f similar contiguity and accuracy to other de Bruijn assemblers (e.g. Velvet). Download Minia 2.0.7 Linux 64-bits binaries (Source code) (Legacy codebase) For the impatient A ty...
2704 days ago
- ...sing a compressed representation of DNA sequence reads. More at https://github.com/jts/sga SGA dependencies: -google sparse hash library (http://code.google.com/p/google-sparsehas...
2704 days ago
- fqtools is a software suite for fast processing of FASTQ files. Various file manipulations are supported. See below for a full list of the subcommands a...
2704 days ago
Standardized velvet assembly report
Requirements: velvet (velveth velvetg should be in your PATH) R (with Sweave) pdflatex (usually part of TeTeX) ggplot2 (from R prompt type install.packages("ggpl...2703 days ago
