Directional Rnaseq: Which Mapping Software For Bacteria? · Biostar

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Directional Rnaseq: Which Mapping Software For Bacteria?

Hello Biostars! I am looking for mapping software to analyze directional/strand-specific RNA-seq data from both paired-end and single-end libraries of bacterial transcriptomes. I have considered TopHat for the analysis, since I am aware of its --library-type fr-firststrand option to preserve the directional information. However, I am concerned that its default settings may not be optimal for prokaryotic transcriptomes.

Do you have any recommendation for a mapping software?

Thank you Biostars!

rna-seq mapping

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written 12.6 years ago by mrals89

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