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Comment on "Benchmarking Perl Module !"
...s to run and a reference to the benchmark subroutine. Here's an example of how to call the timethese function to run the benchmark for 100 iterations: timethese(100, { 'MyModule' => \&b...406 days ago
Comment on "A quick guide to Phred scaling"
...the more confident we are in the base call. For example, a Phred score of 10 corresponds to a base call a...scale: The Phred scale is logarithmic, which means that each increase of 10 in the Phred score correspon...406 days ago
Comment on "Short-read assembly using Spades !"
...hrough a command-line interface or a graphical user interface. The command for running SPAdes is usually as follows: spades.py -o output_directory -1 forward_reads.fastq -2 revers...406 days ago
Comment on "Short-read assembly using Spades !"
...un SPAdes, open the terminal and navigate to the directory where the input data is stored. Then, enter the following command: spades.py -1 <read1.fastq> -2 <read2.fastq&...411 days ago
Comment on "How to install Perl modules manually, using CPAN command, and other quick ways"
To install BioPerl on a macOS system, you can follow these steps: Open the Terminal app on your macOS system. Install Homebrew if you haven't alr...413 days ago
Comment on "CovCal: Coverage / Read Count Calculator"
...the genome L is the read length N is the number of reads For example, if you have a genome of length 5Mbp and you simulate 1,000,000 HiSeq 2000 reads (read length is 100bp), then we will get a sequ...573 days ago
Comment on "Phylogenetic for Bioinformatics"
Nice evolutionary distance caculation methods @ https://www.cs.rice.edu/~nakhleh/COMP571/Slides/Phylogenetics-DistanceMethods-Full.pdf581 days ago
Comment on "Phylogenetic for Bioinformatics"
Nice tutorial https://www.zoology.ubc.ca/~bio336/Bio336/Lectures/Lecture14/Overheads.html582 days ago
Comment on "Elgg Installation steps !"
Useful for debugging https://stackoverflow.com/questions/43094726/your-password-does-not-satisfy-the-current-policy-requirements https://elgg.org/discussion/view/1945994/elgg-requires-the-php-extension-gd597 days ago
Comment on "Run miniasm assembler on nanopore reads !"
...\ ../../trimming_practical/nanofilt/nanofilt_trimmed.fastq \ | gzip -1 > ./minimap.paf.gz mi...ly-stats ./miniasm.fasta dnadiff -p dnadiff ~/course_data/precompiled/chr17.fasta miniasm.fasta...787 days ago
