Man pages for SELEX
Functions for analyzing SELEX-seq data
| SELEX | SELEX Package |
| selex.affinities | Construct a K-mer affinity table |
| selex.config | Set SELEX system parameters |
| selex.counts | Construct or retrieve a K-mer count table |
| selex.countSummary | Summarize available K-mer count tables |
| selex.defineSample | Define annotation for an individual sample |
| selex.exampledata | Extract example data files |
| selex.fastqPSFM | Construct a diagnostic PSFM for a FASTQ file |
| selex.getAttributes | Display sample handle properties |
| selex.getRound0 | Obtain round zero sample handle |
| selex.getSeqfilter | Display sequence filter attributes |
| selex.infogain | Compute or retrieve information gain between rounds |
| selex.infogainSummary | Summarize available information gain values |
| selex.jvmStatus | Display current JVM memory usage |
| selex.kmax | Calculate kmax for a dataset |
| selex.kmerPSFM | Construct a PSFM from a K-mer table |
| selex.loadAnnotation | Load a sample annotation file |
| selex.mm | Build or retrieve a Markov model |
| selex.mmProb | Compute prior probability of sequence using Markov model |
| selex.mmSummary | Summarize Markov model properties |
| selex.revcomp | Create forward-reverse complement data pairs |
| selex.run | Run a standard SELEX analysis |
| selex.sample | Create a sample handle |
| selex.samplePSFM | Construct a diagnostic PSFM for a FASTQ file |
| selex.sampleSummary | Show samples visible to the current SELEX session |
| selex.saveAnnotation | Save sample annotations to file |
| selex.seqfilter | Create a sequence filter |
| selex.setwd | Set or change the working directory |
| selex.split | Randomly split a dataset |
| selex.summary | Display all count table, Markov model, and information gain... |
