Man pages for alyssafrazee/polyester-release
Simulate RNA-seq reads
| add_error | add sequencing error to simulated reads |
| count_transcripts | determine how many transcripts are annotated in a FASTA or... |
| create_read_numbers | Generate a simulated data set based on known model parameters |
| fpkm_to_counts | Turn FPKMs from a ballgown object into estimated counts for... |
| generate_fragments | generate a set of fragments from a set of transcripts |
| getAttributeField | extract a specific field of the "attributes" column of a data... |
| get_params | Estimate zero-inflated negative binomial parameters from a... |
| get_reads | get sequencing reads from fragments |
| gtf_dataframe | data frame (in gtf-inspired format) for chromosome 22, hg19 |
| NB | Draw nonzero negative binomial random numbers |
| polyester | Polyester: simulating RNA-seq reads including differential... |
| reverse_complement | reverse-complement some fragments |
| seq_gtf | Get transcript sequences from GTF file and sequence info |
| simulate_experiment | simulate RNA-seq experiment using negative binomial model |
| simulate_experiment_countmat | Simulate RNA-seq experiment |
| write_reads | write sequencing reads to disk |
