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Posts by jennyl.smith12
Subread FeatureCounts for Exon level quantification: Length estimate for Exons as low as 1 base-pair
... Hello, I am working on quantifying RNASeq data at the exon level, which is intended for use in the DEXSeq package. I followed the documentation provided in the DEXSeq tutorial (http://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.pdf, page 23), as well as the commands on ...
... Hi Michael, Thank you for your response. I examined the correlation of the variance stabilized transformed counts and we do have very correlated pure samples. The minimum correlation found was still 0.95. I tried to run the algorithm again using those two pure samples (cor = 0.95), and I was ...
... Hello, I wanted to use the unmix() function from DESeq2 to investigate the mixing proportions of normal and tumor from bulk tumor RNAseq. I was hoping to compare the results from using this function with A) normalized counts from the median ratio method and B) Transcripts per million (TPM). Firs ...
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