Comment on "Short-read assembly using Spades !"
...bler) is a popular software tool for short-read assembly. Here are the general steps for short-read assembly...repeated until a satisfactory assembly is achieved. These are the general steps for short-read assembly...459 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
Genome synteny analysis is the comparison of the genomic structure and gene content of two or more related species. Here are some general steps to follow for conducting a genome synte...467 days ago
Comment on "Basic command-line to run BLAST"
...cal Alignment Search Tool) is a widely used program for searching a database of sequences to find those that match a query sequence. Here are the general steps for performing a BLAST...467 days ago
Comment on "List of non-commercial NGS genotype-calling software"
...nbsp;– Structural variant discovery by integrated paired-end and split-read analysis. [ paper-2012 ] lumpy – lumpy: a general probabilistic framework for s...1186 days ago
Comment on "SVEngine: Allele Specific and Haplotype Aware Structural Variants Simulator"
Another nice simulation tool https://bioinformaticsonline.com/bookmarks/view/40302/simug-a-general-purpose-genome-simulator1445 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...all variantsPosters and Presentations by GIAB Publications using GIAB:All google scholar publications mentioning GIAB and NIST GIAB Email Lists:General announcementsAnalysis Team B...1604 days ago
Comment on "GraphMap - A highly sensitive and accurate mapper for long, error-prone reads"
...TR Path to the output file that will be generated. --gtf STR Path to a General Transfer Format file. If spec...e specified in megabytes. Value <= 0 loads the entire file. [1024] General-purpose pre-set options: -x,...2336 days ago
Comment on "Structural variation: the hidden genomic treasure"
Hydra-SV The pipeline described below is meant to convey a general approach that they have found to be effective for discovering SV breakpoints with Hydra. However, it should be...2747 days ago
Comment on "Commercial and public next-gen-seq (NGS) software"
...wtie-bio.sourceforge.net/Novoalign: http://www.novocraft.comBWA - Burrows-Wheeler Alignment Tool: http://maq.sourceforge.net/bwa-man.shtmlBWA-SW (general purpose local alignment tool)...3666 days ago
Comment on "R and Bioconductor Tutorial"
SimpleR tutorials is very lucid and practical for general data analysis with R. http://cran.r-project.org/doc/contrib/Verzani-SimpleR.pdf3751 days ago