Hello,
I have .sam files that I would like to feed into htseq-count. However, I must first have a reference file in .gtf format, I believe.
I have access to an "assembled transcriptome" that is .fa.gz format of the same species from the .sam files. Could this possibly be used for the htseq-count as reference sequence input, and if so, should I do something to change its format as an acceptable input?
I am sorry for the noobie question!
I have .sam files that I would like to feed into htseq-count. However, I must first have a reference file in .gtf format, I believe.
I have access to an "assembled transcriptome" that is .fa.gz format of the same species from the .sam files. Could this possibly be used for the htseq-count as reference sequence input, and if so, should I do something to change its format as an acceptable input?
I am sorry for the noobie question!
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