A dataset containing transcript-level transcript-level read count abundances from salmon quantification. The dataset includes samples as columns (SRR14800475-SRR14800490) and transcript IDs as row names.
Usage
data(readcounts)Format
A data frame with 3514 transcripts (rows) and 16 samples (columns). Row names are transcript IDs (ENST format) and column names are sample IDs. Values represent TPM-normalized read counts.
Value
A matrix (data frame) containing transcript-level TPM-normalized read
counts from salmon quantification. Rows represent transcripts (ENST format
IDs) and columns represent samples. Aliases include readcounts
(main read count matrix), tpm (TPM values), and
effective_length (transcript lengths from salmon).
Examples
data(readcounts, package = 'TSENAT')
dim(readcounts)
#> [1] 3089 16
head(readcounts[1:4, 1:3])
#> SRR14800475 SRR14800476 SRR14800477
#> ENST00000162391.8 757.160 452.836 329.451
#> ENST00000187762.7 36.570 83.967 56.887
#> ENST00000221130.11 935.366 3356.274 3008.108
#> ENST00000221818.5 3.000 0.000 0.000