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- Jit on Edit distance application in bioinformatics ! (1772 days ago): Nice PDF explaining the...
- Jit on Edit distance application in bioinformatics ! (2573 days ago): This one is very nice tutorial https://web.stanford.edu/class/cs124/lec/med.pdf
- Neel on Most Commonly used Awk by Bioinformatician (3213 days ago): Rename the name of multi fasta sequesnces with awk awk '/^>/{print...
- John Parker on Most Commonly used Awk by Bioinformatician (3747 days ago): One of the best known cheat sheet for...
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perl, Awesome, frameworks, libraries, software, Bioinformatics, Awk, visualization, tools, biological, pathways, Comprehensive, list, split reads, read depth, discordant reads, concordant reads, fragment size, definition, NGS, Quick, Edit, distance, application, fastq, fasta, convert, sed, seqtk, bioawk, fastx, Emboss, fastq2fasta, IUPAC, codes, DNA, Nucleotide, Steps, Repeats, Genome, RepeatMasker, Program, Alignment, Global, AVID
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Steps to find all the repeats in the genome !
Last updated 481 days ago by NeelTo find repeats in a genome from 2 to 9 length using a Perl script, you can use the RepeatMasker tool with the "--length" option[0]. Here's a step-by-step guide: Install RepeatMasker: First, you need to install RepeatMasker on your system. You...-
IUPAC codes
Last updated 2478 days ago by NeelIUPAC codes DNA: Nucleotide Code: Base: ---------------- ----- A.................Adenine C.................Cytosine G.................Guanine T (or U)..........Thymine (or Uracil) R.................A or G Y.................C or... -
Comprehensive list of visualization tools for biological pathways
Last updated 2520 days ago by NeelThe study of biological pathways is a key to understand the different processes inside a cell: proteins exert their function not in isolation but in a tightly controlled network of interactions and reactions. Activation of a pathway typically leads... -
Converting FASTQ to FASTA
Last updated 2538 days ago by NeelThere are several ways you can convert fastq to fasta sequences. Some methods are listed below. Using SED sed can be used to selectively print the desired lines from a file, so if you print the first and 2rd line of every 4 lines, you get the... -
Edit distance application in bioinformatics !
Last updated 2574 days ago by Neel Comments (2)There are other popular measures of edit distance, which are calculated using a different set of allowable edit operations. For instance, the Damerau–Levenshtein distance allows insertion, deletion, substitution, and... -
Awesome perl frameworks, libraries and software - PART 1
Last updated 2722 days ago by JitA curated list of awesome Perl frameworks, libraries and software. major/MySQLTuner-perl - MySQLTuner is a script written in Perl that will assist you with your MySQL configuration and make recommendations for increased performance and... -
Quick next generation sequencing (NGS) terms definition
Last updated 2755 days ago by Neelfragment size: the Illumina WGS protocol generates paired-end reads from both ends of longer fragments. The lengths of these fragments are assumed to be sampled from a normal distribution. Therefore, in the absence of structural variants,...
