Man pages for aramette/otu2ot
Calculate oligotypes for aligned FASTA sequences
| CalcEntropy.seq | calculates the entropy for a nucleotide sequence provided as... |
| CalcEntropy.word | calculates the entropy for a concatenated nucleotide sequence |
| Check.entropy.nseq | Check for a subset of FASTA sequences provided as a list,... |
| Count.BrokenStick | Applies the Broken Stick model to a vector of count data. |
| GetEnvironmentDatafromFileR | Parse the FASTA headers to retrieve the sample information. |
| HGB_0013.fasta | FASTA alignment corresponding to OTU... |
| ImportFastaAlignment | Import a FASTA alignment from a file |
| MED | Minimum Entropy Decomposition |
| MEDMat | Minimum Entropy Decomposition |
| mock.fasta | mock data for testing the oligotyping pipeline. |
| OnePassProfiling | Provides oligotyping based on a one-pass entropy profiling,... |
| OnePassProfilingMat | Provides oligotyping based on a one-pass entropy profiling,... |
| otu2ot-package | The package implements the oligotyping procedure in R. |
| plotEntropy | Plot the entropy profile for a matrix of sequences |
| plot.lm.ci | plots a x,y plot with the result of a linear regression model... |
| SampleXOT_Table | creates a Sample-by-OT table. |
