Results for "Algorithm Design"
Top-level pages
RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis pip...eview all of the major steps in RNA-seq data analysis, including experimental design, quality control, read alignm...2363 days ago
Edit distance application in bioinformatics !
There are other popular measures of edit distance, which are calculated using a diffe...); print "@distances"; # prints "2 0 3" use Algorithm::LCSS qw( LCSS CSS CSS_Sorted...tein::XS are both versions of the Levenshtein algori...2354 days ago
Bioinformatics Web Application Development with Perl
Perl's second wave of adoption came from the growth of the...rplate. Perl has dozens of frameworks and toolkits designed to make web development and...;Mojolicious (Mojo) framework has a real-time design based on high performance eve...2334 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double space a fileperl -pe '$\="\n"'perl -pe 'BEGIN { $\="\n"...Calculate GCM of numbers 20 and 35 using Euclid's algorithmperl -le '$n = 20; $m = 35; ($...# Find and print all permutations of a listperl -MAlgori...2315 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing...compatible http://www.htslib.org/ SEWAL Uses a locality-sensitive hashing algori...2297 days ago
Python learning resources for bioinformatics and computational biologist !
...y values) Building Skills in Object-Oriented Design (Python) (PDF) (2.1.1) Bui...sing Programs (3.x) Data Structures and Algorithms in Python - B. R. Preis...;- Jeffrey Elkner (PDF) Problem Solving with Algorithms and Data Structures using...2268 days ago
Some useful Bioinformatics links
...407/ GATB/DiscoSnp: DiscoSnp is designed for discovering all kinds of S...afft.cbrc.jp/alignment/software/algorithms/algorithms.html Measuring the distance...ion platform for synthetic gene design | Bioinformatics | Oxford Aca...t-plots%26catid%3D52:cat_coding_algorithms_dot-plots%26Itemid%3D76 R...2254 days ago
Gap filling or Contigs extensions tools !
There are many tools to perform gap filling using Illumina short reads, for example "GapFiller: a de novo assembly ap...ll genome, just the 100 kb part you're interested in. I suggest the following algori...2178 days ago
Frequent parameters for bioinformatics tools !
Third party executable parameters and options. Trimmomatic “ILLU....task_options.min_length: 50 Pbalign.task_options.algorithm_options: --minMatch 12 --bes...iveAsm_bool: false Genomic_consensus.task_options.algori...1298 days ago
Mitochondrial genome assembly tools !
...ls are specialized software and algorithms designed to accurately reconstruct the...OPlasty is a user-friendly tool designed for de novo assembly of org.... It utilizes a seed-and-extend algorithm and is suitable for both s...GetOrganelle: While primarily designed for chloroplast genome asse...255 days ago
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