Appending a Poly-A Tail to a Reference Transcriptome

Question

[jon.klonowski]

I am using a pipeline (http://churchill-lab.github.io/emase-zero/) to create organism-specific diploid transcriptomes to align RNAseqs to and then quantify with allele specific expression. They suggest:

Note: We highly recommend adding poly-A tail to the alignment target sequences (transcripts) when you build bowtie index. We usually add (R-1)-long poly-A tails where R is the read length.

Is there an available tool that accomplishes this?

Answer 1

[bk11]

I m not sure but if this is something you want to do in this link RSEM.

[jon.klonowski]

what do you mean? But yes, I knew I saw that function somewhere. Thank you! I will let you know if works as I envisioned.