# Simulate RNA-seq reads

## Documentation for package ‘polyester’ version 1.0.2

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

polyester-package | Polyester: simulating RNA-seq reads including differential expression
add_error | add sequencing error to simulated reads
count_transcripts | determine how many transcripts are annotated in a FASTA or GTF file
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 transcripts
generate_fragments | generate a set of fragments from a set of transcripts
getAttributeField | extract a specific field of the "attributes" column of a data frame created from a GTF/GFF file
get_params | Estimate zero-inflated negative binomial parameters from a real dataset
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 expression
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