Statistical Patterns in Genomic Sequences
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Documentation for package ‘spgs’ version 1.0-4
Help Pages
| spgs-package | Statistical Patterns in Genomic Sequences |
| ag.test | Test of Purine-Pyrimidine Parity Based on Purine Count |
| agct.test | Test of Purine-Pyrimidine Parity Based on Euclidean distance |
| array2vector | Convert Arrays and Tables to Vectors with Named Elements |
| chargaff.gibbs.test | Test of CSPR for Dinucleotides Under Gibbs Distribution |
| chargaff0.test | Vector Test of Chargaff's Second Parity Rule (CSPR) for Mononucleotides |
| chargaff1.test | Matrix Test of CSPR for Mononucleotides |
| chargaff2.test | Matrix Test of CSPR for Dinucleotides |
| chisq.unif.test | Test of Uniformity Based on Pearsons's Chi-Squared test |
| complement | Complement of a DNA/RNA Sequence |
| complement.default | Complement of a DNA/RNA Sequence |
| complement.list | Complement of a DNA/RNA Sequence |
| complement.SeqFastadna | Complement of a DNA/RNA Sequence |
| cylinder.counts | Count Cylinders (Fixed-Offset Patterns) in Character Vectors |
| diffsign.test | the Differents-Sign Test of Statistical Independence |
| diid.disturbance | Construct feasible Random Noise Generating a Bernoulli Process |
| diid.test | A Test for a Bernoulli Scheme (IID Sequence) |
| disambiguate | Disambiguate a Nucleic Sequence |
| disambiguate.default | Disambiguate a Nucleic Sequence |
| disambiguate.list | Disambiguate a Nucleic Sequence |
| disambiguate.SeqFastadna | Disambiguate a Nucleic Sequence |
| estimateMarkovChain | Fit a first-Order Markov Chain to a Sequence of Finite Symbols |
| ks.unif.test | Using 'ks.test' to test for Uniformity on the Unit Interval |
| lb.test | The Ljung-Box Test for Uncorrelated Data |
| markov.disturbance | Construct feasible Random Noise Generating a First-Order Markov Chain |
| markov.test | A Test for First-Order Markovianness |
| nanoarchaeum | DNA sequence for the Nanoarchaeum equitans Kin4-M Chromosome |
| oligoCorr | Oligo Profiles and Oligo Profile Correlation Plots of Nucleotide Sequences |
| oligoProfile | Oligo Profiles and Oligo Profile Correlation Plots of Nucleotide Sequences |
| pair.counts | Count Pairs in Character Vectors |
| pieris | DNA sequence for the Pieris Rapae Granulovirus Genome |
| plot.OligoProfile | Oligo Profiles and Oligo Profile Correlation Plots of Nucleotide Sequences |
| print.OligoProfile | Oligo Profiles and Oligo Profile Correlation Plots of Nucleotide Sequences |
| quadruple.counts | Count Quadruplets in Character Vectors |
| rank.test | The Rank Test of Statistical Independence |
| rcspr2mat | Random Stochastic Matrices Complying with Chargaff's Second Parity Rule for Dinucleotides |
| reverseComplement | Reverse Complement of a DNA/RNA Sequence |
| reverseComplement.default | Reverse Complement of a DNA/RNA Sequence |
| reverseComplement.list | Reverse Complement of a DNA/RNA Sequence |
| reverseComplement.SeqFastadna | Reverse Complement of a DNA/RNA Sequence |
| rstochmat | Random Generation of Stochastic Matrices |
| rstochvec | Random Generation of Stochastic (Probability) Vectors |
| simulateMarkovChain | Simulate a first-Order Markov Chain |
| spgs | Statistical Patterns in Genomic Sequences |
| table2vector | Convert Arrays and Tables to Vectors with Named Elements |
| triple.counts | Count Triplets in Character Vectors |
| turningpoint.test | The Turning Point Test of Statistical Independence |