Diploid Genome Sequence

This script is useful when you want to get the items from a sequence (or other iterable) a batch at a time, including a short batch at the end if need be.

Jnomics is a collection of cloud-scale DNA sequence analysis tools

The project is for developing libraries for visualizing biological sequence data on the web. The libraries are written in C and currently use a language (lex/yacc) based front end for presenting features on genomes, contigs, or any type of sequence.


Platforms: Mac, BSD, Linux

A fast and reliable tool, written in Java 5, for generating professional UML sequence diagrams from text. Supports actors, con-/destructors, threads, broadcasts, notes, and fragments. Can serve as a Javadoc taglet. Exports PDF, (E)PS, SVG, PNG, ...


Platforms: Windows, Mac, Linux

This script allows you to sort recursively nested lists if iterable is a mutable sequence type.


Platforms: Windows, Mac, *nix, Python, BSD Solaris

Permutations and combinations are often required in algorithms that do a complete search of the solution space. They are typically rather large so it's best not to compute them entirely but better to lazily generate them.This script uses Python generators to create appropriate generator objects,...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

This script contains a function that given a sequence and a number n as parameters, returns the th permutation of the sequence (always as a list).


Platforms: Windows, Mac, *nix, Python, BSD Solaris

Creates a software environment enabling users to make basic bioinformatics analyses and smooth data management, combined with excellent graphical viewing and output options. Some bioinformatics features are: - GenBank searching and viewing (linear and circular views) - Multiple alignment of...


Platforms: Mac

RNNLIB is a recurrent neural network library for sequence learning problems. Applicable to most types of spatiotemporal data, it has proven particularly effective for speech and handwriting recognition.


Platforms: Mac

This script defines permIter() function that takes a sequence and returns an iterator that goes through all possible permutations of that sequence.


Platforms: Windows, Mac, *nix, Python, BSD Solaris

This script computes an infinite sequence of primes using simple generators. A Python dictionary is used to mark multiples of the generated primes, according to the Sieve of Eratosthenes.


Platforms: Windows, Mac, *nix, Python, BSD Solaris

The fastest way to remove duplicates from a sequence depends on some pretty subtle properties of the sequence elements, such as whether they're hashable, and whether they support full comparisons. This script defines the unique() function that tries three methods, from fastest to slowest,...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

This function provides farey sequence, F(n), for any integer n.There's probably a more elegant solution out there, but I couldn't find it. Note: it doesn't prepend (0,1) and append (1,1)...


Platforms: Windows, Mac, *nix, Python, BSD Solaris

This script allows you to quickly select the n-th rank ordered element of a given sequence. It modifies the ordering of the given sequence.


Platforms: Windows, Mac, *nix, Python, BSD Solaris

This function returns N point DFT samples of 2dw band of Fourier transform of a sequence. Typically, fft() returns N samples of Fourier transform ranging from 0 to 2pi. This function takes the N-point DFT samples and returns N-point samples corresponding to frequency band wc-dw to wc+dw.


Platforms: Matlab

This script allows you to split up a sequence in same-size (if possible) parts.


Platforms: Windows, Mac, *nix, Python, BSD Solaris

Getting min/max in a sequence script allows you to find the min/max value in a sequence as compared to a reference.


Platforms: Windows, Mac, *nix, Python, BSD Solaris

Set of 3 functions to generate a movie sequence: CamSeqUpdate, CamSeqGen, and CamSeqPlay.From a 3D scene in the current windows, the user specifies a series of views by moving the camera with the camera toolbox (CamSeqUpdate). The list of views are then used to generate a continuous sequence by...


Platforms: Matlab

A powerful and user-friendly graphical software designed to conduct large scale exploration of biological sequence databanks and related information (functional, taxonomy, pathways, mutations, etc). KoriBlast can be used for a wide range of applications in genomics and proteomics, such as: full...


Platforms: Mac

MyGCAT: My Genome Collection With Assigned Taxonomy provides for the management of extremely large sequence databases and allows for the creation of taxon specific BLAST databases. Primariliy a set of PERL scripts and a HTML interface to a MySQL database


Platforms: Windows, Mac, Linux