retrieves: Get length or GC of each sequence in a DNAStringSet object

In TaliaferroLab/FeatureReachR: Extract Enriched Biological Features From RNA-seq Data

Description

These functions return data frames containing the length or GC content for each sequence in a DNAStringSet object.

Usage

get_length(DNAStringSet)

get_GC(DNAStringSet)

Arguments

DNAStringSet

A DNAStringSet Object. Use readDNAStringSet on a fasta file to create.

Value

A data frame with the length or GC content for each sequence in a DNAStringSet object

Functions

• get_length: the length of each sequence in a DNAStringSet object and returns a dataframe.

• get_GC: both the length and GC content of each sequence in a DNAStringSet object and returns a dataframe.

See Also

write_Sequence, readDNAStringSet, letterFrequency

Examples

case_fasta <- Biostrings::readDNAStringSet("example_case.fa")
get_length(case_fasta)
get_GC(case_fasta)

TaliaferroLab/FeatureReachR documentation built on Aug. 15, 2021, 2:21 p.m.