Software packages for next gen sequence analysis
...s gapped alignments using the Smith-Waterman algorithm. Features a number of support...-end Illumina reads. Uses a Needleman-Wunsch algorithm. Can support Bis-Seq. Commerc...red. * SEQAN - A Consistency-based Consensus Algorithm for De Novo and Reference-gui...3242 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...FASTA Output: 2Kplus2 Description: algorithm searches graphs produced by d...r of read file, reference genome and mapping algorithm an experiment directory will...to help study pre-mRNA splicing; combines 12 algorithms to identify mutations’...2908 days ago
Genome Assembly Tools and Software - PART1 !!
...dash; Lightweight Resources Assembly Algorithm Lightweight resources assembly algorithm for high-throughput sequencin...o circularize genome assemblies. The algorithm and benchmarks are described...rporates cutting-edge technology and algorithms, while also supporting and i...2685 days ago
Source Code and Pseudo Code !!
An algorithm is a procedure for solving a proble...hose actions are to be executed. An algorithm is merely the sequence of ste...uage that helps programmers develop algorithms. Pseudocode is a "text-based...e of pseudocode to elaborate on the algorithmic detail and not just cite an...2659 days ago
Awesome perl frameworks, libraries and software - PART 1
...ous - (Perl) Run your tests suite continusouly when developing. grickit/Gambot - Gambot is a modular IRC bot written in Perl. grantm/Algorithm-CouponCode - Perl librar...2489 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...//lava.csail.mit.edu/ MICADo Detection of mutations in targeted third-generation NGS data (can distinguish patients’ specific mutations; algorithm uses k-mers and is based...2371 days ago
2351 days ago
Single Cell RNAseq data analysis tutorial !!
...212720.116.abstract SCODE: An efficient regulatory network inference algorithm from single-cell RNA-Seq duri...ocally linear Inference of Cellular Expression Relationships (SLICER) algorithm for inferring cell trajectori...2350 days ago
Edit distance application in bioinformatics !
...stance("foo",@words); print "@distances"; # prints "2 0 3" use Algorithm::LCSS qw( LCSS CSS CSS_Sorted... Text::Levenshtein::XS are both versions of the Levenshtein algorithm that require a C compiler, bu...2341 days ago
PerlOneLiner for Bioinformatician
...ist_of_numbers)' # Calculate GCM of numbers 20 and 35 using Euclid's algorithmperl -le '$n = 20; $m = 35; ($...in))+$min } 1..$n' # Find and print all permutations of a listperl -MAlgorithm::Permute -le '$l = [1,2,3,4,5...2302 days ago