Differences between revisions 27 and 39 (spanning 12 versions)
 ⇤ ← Revision 27 as of 2007-04-27 18:51:35 → Size: 4077 Editor: wstein Comment: ← Revision 39 as of 2008-11-14 13:42:15 → ⇥ Size: 4705 Editor: anonymous Comment: converted to 1.6 markup Deletions are marked like this. Additions are marked like this. Line 1: Line 1: = What SAGE Can Do = = What Sage Can Do = Line 3: Line 3: SAGE does a wider range of mathematics than every other open source mathematics software, partly by virtue of incorporating several of the other large mature systems. Line 5: Line 4: This is a high-level overview and list of functionality that is easily available from the standard SAGE interface. (The intended reader has never heard of Maxima, GAP, Singular, Givaro, etc.).   This should be aimed at SAGE-2.5, and will be released with it. This is a high-level overview and list of functionality that is easily available from the standard Sage interface. (The intended reader has never heard of Maxima, GAP, Singular, Givaro, etc.). == Bioinformatics == * Sage can parse various file formats such as !GenBank, FASTA, BLAST, and ClustalW. * Access online databases such as NCBI, !SwissProt, and !PubMed. * Translate RNA sequences to protein sequences using a variety of translation types (e.g. mitochondrial). Line 8: Line 12: * SAGE has fairly complete symbolic manipulation capabilities, including symbolic and numerical integration, differentiation, limits, etc. * Sage has fairly complete symbolic manipulation capabilities, including symbolic and numerical integration, differentiation, limits, etc. Line 10: Line 14: == Combinators == == Combinatorics == Line 21: Line 25: * Fast basic arithmetic over \$Q\$ and \$GF(p^n)\$. * Global, local and mixed monomial orderings. * Many basic ideal related functions/methods. Line 25: Line 32: * Fast point counting on elliptic curves. * Support for algebraic cryptanalysis like small scale AES equation system generators Line 28: Line 38: * The SAGE notebook (a graphical interface) is a useful tool for basic math education because of its flexible visualization/output capabilities. * The Sage notebook (a graphical interface) is a useful tool for basic math education because of its flexible visualization/output capabilities. Line 32: Line 42: * Very fast arithmetic over finite fields and extensions of finite fields (especially up to cardinality 2^16). * Fast arithmetic over finite fields and extensions of finite fields for \$GF(p^n)\$ with \$p^n < 2^{16}\$ and \$p=2\$ and \$n > 1\$. Line 50: Line 60: == Interfaces == == Interfaces to Math Software == Line 59: Line 69: * Sparse matrix solver and rank computation over \$GF(p)\$. Line 64: Line 75: * An optimized modern quadratic sieve for factoring integers n = p*q. * Optimized modern quadratic sieve for factoring integers n = p*q. * Optimized implementation of the elliptic curve factorization method. Line 83: Line 95: * SAGE provides very complete 2d plotting functionality similar to Mathematica's.  * SAGE provides limited 3d plotting via an included ray tracer. * Sage provides very complete 2d plotting functionality similar to Mathematica's.  * Sage provides limited 3d plotting via an included ray tracer. Line 89: Line 101: == Statistics == * Linear and nonlinear modelling, classical statistical tests, time-series analysis, classification, clustering.

What Sage Can Do

This is a high-level overview and list of functionality that is easily available from the standard Sage interface. (The intended reader has never heard of Maxima, GAP, Singular, Givaro, etc.).

Bioinformatics

• Sage can parse various file formats such as GenBank, FASTA, BLAST, and ClustalW.

• Access online databases such as NCBI, SwissProt, and PubMed.

• Translate RNA sequences to protein sequences using a variety of translation types (e.g. mitochondrial).

Calculus

• Sage has fairly complete symbolic manipulation capabilities, including symbolic and numerical integration, differentiation, limits, etc.

Combinatorics

• Many basic functions.
• Many of Sloane's functions are implemented.

Coding theory

• A wide range of basic functionality.

Commutative Algebra

• Fast computation of Groebner basis.
• Fast basic arithmetic over Q and GF(p^n).

• Global, local and mixed monomial orderings.
• Many basic ideal related functions/methods.

Cryptography

• Classical ciphers are well supported.
• Fast point counting on elliptic curves.
• Support for algebraic cryptanalysis like small scale AES equation system generators

Elementary Education

• The Sage notebook (a graphical interface) is a useful tool for basic math education because of its flexible visualization/output capabilities.

Finite Fields

• Fast arithmetic over finite fields and extensions of finite fields for GF(p^n) with p^n < 2^{16} and p=2 and n > 1.

Graph Theory

• Construction, directed graphs, labeled graphs.
• 2d and 3d plotting of graphs using an optimized implementation of the spring layout algorithm.
• Constructors for all standard families of graphs
• Graph isomorphism testing; automorphism group computation

Graphical Interface

• A web-browser based graphical interface, which anybody can easily use or share. The GUI can also be used for any math software that SAGE interfaces with.
• A wiki with math typesetting preconfigured.

Group Theory

• Permutations groups
• Abelian groups
• Matrix groups (in particular, classical groups over finite fields)

Interfaces to Math Software

• Interpreter interfaces to Axiom, CoCoA, GAP, KASH, Macaulay2, Magma, Maple, Mathematica, Matlab, Maxima, MuPAD, Octave, and Singular.
• C/C++-library interfaces to NTL, PARI, Linbox, and mwrank.

Linear Algebra

• Compute the reduced row echelon form of e.g. dense 20,000x20,000 matrices over GF(2) in seconds and 50MB of RAM.
• Computation of reduced row echelon forms of sparse matrices.
• Sparse matrix solver and rank computation over GF(p).

• Fast matrix multiplication, characteristic polynomial and echelon forms of dense matrices over QQ.

Number Theory

• Compute Mordell-Weil groups of (many) elliptic curves using both invariants and algebraic 2-descents.
• A wide range of number theoretic functions, e.g., euler_phi, primes enumeration, sigma, tau_qexp, etc.
• Optimized modern quadratic sieve for factoring integers n = p*q.
• Optimized implementation of the elliptic curve factorization method.
• Modular symbols for general weight, character, Gamma1, and GammaH.
• Modular forms for general weight >= 2, character, Gamma1, and GammaH.

• Elliptic Curves:
• All standard invariants of elliptic curves over QQ, division polynomials, etc.
• Compute the number of points on an elliptic curve modulo p for all primes p less than a million in seconds.
• Optimized implementation of the Schoof-Elkies-Atkin point counting algorithm for counting points modulo p when p is large.
• Complex and p-adic L-functions of elliptic curves
• Can compute p-adic heights and regulators for p < 100000 in a reasonable amount of time.

• Formal groups

Numerical Computation

• Fast arithmetic and special functions with double precision real and complex numbers.
• Matrix and vector arithmetic, QR decomposition, system solving.

• Extensive support for arithmetic with a range of different models of p-adic arithmetic.

Plotting

• Sage provides very complete 2d plotting functionality similar to Mathematica's.
• Sage provides limited 3d plotting via an included ray tracer.

Polytopes

• State of the art support for computing with lattice polytopes.
• Exact convex hulls in any dimension can be quickly computed (requires the optional polymake package).

Statistics

• Linear and nonlinear modelling, classical statistical tests, time-series analysis, classification, clustering.

cando (last edited 2008-11-14 13:42:15 by anonymous)