How to install Perl modules manually, using CPAN command, and other quick ways
...to configure it by executing cpan, you should set some configuration parameters as shown below. I have shown only the important configuration parameters below. Accept all the default...3942 days ago
Computer simulation of genetic mechanism !!
...n and Homepage Aladyn Tools to investigate how demographic parameters, populations genetics and abi...of the experimental pipelines for RNA-Seq, employing a minimal set of parameters. http://sammeth.net/confluenc...2967 days ago
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
...sents a significant improvement over the state-of-the-art for PacBio read mappers. GraphMap was also designed for ease-of-use: the default parameters can handle a wide range...3216 days ago
2979 days ago
Genome Assembly Tools and Software - PART2 !!
...raphs and frequency estimation via Expectation Maximization on all reads. VelvetOptimiser 2.2.5 – Automatically Optimise Velvet Assembler ParametersVelvetOptimiser is a mult...2677 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
...he Flux Simulator aims at providing a deterministic in silico reproduction of the experimental pipelines for RNA-Seq, employing a minimal set of parameters. http://flux.sammeth.net/simu...3729 days ago
List of In-silico Binding Site Prediction Tools
...tify putative contacting residues. However, whilst most of this prediction process can be automated, visual inspection and manual adjustments of parameters, such as the distance thresho...3735 days ago
3543 days ago
Webinar on Streamlining large scale analysis using the Strand NGS Pipeline Manager on 24 Feb 2016
...GS allows users to execute a sequence of analysis steps with specific parameters - all without any manual inte...resent in Strand NGS. The packaged pipelines have well-chosen default parameters and are suitable for users an...3004 days ago
Count GC Content in nucleotide sequence with Perl
...-------------------------------------------------- #Deal with passed parameters #---------------------------...) ) { print "Couldn't create $out_file\n"; exit; } print "Parameters:\nfasta file = $fasta_file\no...2897 days ago
2685 days ago
Tags: BLAST, Scores, Parameters, E-Values
3866 days ago
CANU genome assembly parameters !
Choose the appropriate parameters to run Canu and run it. The assembly will take about an hour. You can use two cores (parameter -maxThreads=2) and you would like to disable cluster option, since we compute on a single Amazon server set off the option to compute on cluster useGrid=false...Tags: CANU, genome, assembly, parameters, NGS, LongReads, OLC
1937 days ago
Comment on "Basic command-line to run BLAST"
Understanding the parameters https://www.arabidopsis.org/Blast/BLASToptions.jsp389 days ago
Comment on "Short-read assembly using Spades !"
...repeated until a satisfactory assembly is achieved. These are the general steps for short-read assembly using SPAdes. However, the specific parameters used for SPAdes and the evalu...407 days ago